Auto-upload: Masks + Auxiliary files
Browse filesThis view is limited to 50 files because it contains too many changes.
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- .gitattributes +395 -0
- processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_TCGA-E2-A1IU-01A-21-A17J-20_RPPA_data.tsv +488 -0
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- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_33fbc3aa-c3f3-47b3-99dc-fd0f70422151_noid_Grn.idat +3 -0
- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_36125e17-48fd-4eea-874c-ed2e2e218402.rna_seq.augmented_star_gene_counts.tsv +0 -0
- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_4ebb1ec1-1b17-49f8-b5ca-79893b22049b.wgs.ASCAT.gene_level.copy_number_variation.tsv +0 -0
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- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_4fbe4ee1-7efd-4ba4-8116-5ab3b4666b48.mirbase21.mirnas.quantification.txt +1882 -0
- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_D07_778102.nocnv_grch38.seg.v2.txt +66 -0
- processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_D08_777960.nocnv_grch38.seg.v2.txt +50 -0
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- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_66418885-39f5-458c-a032-640eaf030b79_noid_Red.idat +3 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_8d3d544f-6d1a-4cdc-8091-490311487ebd.rna_seq.augmented_star_gene_counts.tsv +0 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G08_734684.grch38.seg.v2.txt +541 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G08_734684.nocnv_grch38.seg.v2.txt +149 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G09_734640.grch38.seg.v2.txt +341 -0
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- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128-01A-01-BSA.9019856f-fe50-42af-8588-b73395fc0165_mask.png +3 -0
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- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128-01A-21-A13E-20_RPPA_data.tsv +488 -0
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- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.absolute_liftover.gene_level_copy_number.v36.tsv +0 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat2.allelic_specific.seg.txt +117 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat3.allelic_specific.seg.txt +53 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat3.gene_level_copy_number.v36.tsv +0 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ed9b710f-c83f-4ab6-8cef-d0cc9f8aeeb4.wxs.aliquot_ensemble_masked.maf.gz +3 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_biospecimen.TCGA-AO-A128.xml +575 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_clinical.TCGA-AO-A128.xml +389 -0
- processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_ssf.TCGA-AO-A128.xml +104 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_508ba40f-1ef5-49ac-9dcf-6c32680a3338.mirbase21.isoforms.quantification.txt +0 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_C07_741416.nocnv_grch38.seg.v2.txt +285 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_C11_741500.nocnv_grch38.seg.v2.txt +69 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-BRCA.e5ab2046-c8a8-4636-865c-c92d6b3da823.absolute_liftover.gene_level_copy_number.v36.tsv +0 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-BRCA.e5ab2046-c8a8-4636-865c-c92d6b3da823.ascat3.gene_level_copy_number.v36.tsv +0 -0
- processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-E2-A155-01A-01-TSA.555fff50-3656-4fe1-bd55-867efffc6ae0_mask.png +3 -0
.gitattributes
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# Video files - compressed
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*.mp4 filter=lfs diff=lfs merge=lfs -text
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*.webm filter=lfs diff=lfs merge=lfs -text
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# Video files - compressed
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*.mp4 filter=lfs diff=lfs merge=lfs -text
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*.webm filter=lfs diff=lfs merge=lfs -text
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+
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_b188b8ae-d5f0-441e-94cb-2eacc8e4507d.methylation_array.sesame.level3betas.txt filter=lfs diff=lfs merge=lfs -text
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processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_b188b8ae-d5f0-441e-94cb-2eacc8e4507d_noid_Red.idat filter=lfs diff=lfs merge=lfs -text
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processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_33fbc3aa-c3f3-47b3-99dc-fd0f70422151_noid_Grn.idat filter=lfs diff=lfs merge=lfs -text
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processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_TCGA-A1-A0SB.BEC7EEA9-6DEA-4402-A3A1-07EF33D58174.PDF filter=lfs diff=lfs merge=lfs -text
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processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_66418885-39f5-458c-a032-640eaf030b79.methylation_array.sesame.level3betas.txt filter=lfs diff=lfs merge=lfs -text
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processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_66418885-39f5-458c-a032-640eaf030b79_noid_Red.idat filter=lfs diff=lfs merge=lfs -text
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processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128.03526CFD-0C3E-4ACB-AB26-3E0B0ED0ADA2.PDF filter=lfs diff=lfs merge=lfs -text
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|
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|
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|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_TCGA-E2-A1IU-01A-21-A17J-20_RPPA_data.tsv
ADDED
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| 1 |
+
AGID lab_id catalog_number set_id peptide_target protein_expression
|
| 2 |
+
AGID00100 882 sc-628 Old 1433BETA 0.34024
|
| 3 |
+
AGID00111 913 sc-23957 Old 1433EPSILON 0.1109
|
| 4 |
+
AGID00101 883 sc-1019 Old 1433ZETA -0.2574
|
| 5 |
+
AGID00001 2 9452 Old 4EBP1 -0.45185
|
| 6 |
+
AGID00002 3 9456 Old 4EBP1_pS65 -0.23081
|
| 7 |
+
AGID00003 6 9459 Old 4EBP1_pT37T46 -0.34048
|
| 8 |
+
AGID00443 8 9455 Old 4EBP1_pT70 -0.14381
|
| 9 |
+
AGID00120 985 4937 Old 53BP1 -0.37567
|
| 10 |
+
AGID00004 13 3661 Old ACC_pS79 0.39427
|
| 11 |
+
AGID00005 14 1768-1/ab45174 Old ACC1 -0.12185
|
| 12 |
+
AGID00408 2372 3658 Set163 AceCS1 1.139889
|
| 13 |
+
AGID00473 1182 5335 Old ACETYLATUBULINLYS40 -0.35215
|
| 14 |
+
AGID00404 2367 9189 Set163 ACSL1 0.95836
|
| 15 |
+
AGID02144 2450 PA5-27081 Old ACVRL1 0.293
|
| 16 |
+
AGID00186 1198 ab88574 Old ADAR1 -0.35869
|
| 17 |
+
AGID00146 1084 4691 Old AKT -0.13014
|
| 18 |
+
AGID00028 230 9271 Old AKT_pS473 -0.26159
|
| 19 |
+
AGID00170 1154 2965 Old AKT_pT308 -0.17857
|
| 20 |
+
AGID00316 1800 3063 Set163 Akt2 -0.043915
|
| 21 |
+
AGID00347 2009 8599 Set163 Akt2_pS474 0.2061194
|
| 22 |
+
AGID02215 2577 ab195377 Set163 ALKBH5 -0.2702552
|
| 23 |
+
AGID00498 924 CA1030 Old ALPHACATENIN NA
|
| 24 |
+
AGID00287 1630 ABC80 Set163 Ambra1_pS52 -0.2160558
|
| 25 |
+
AGID00236 1351 ab129081 Set163 AMPK-a2_pS345 -0.3363451
|
| 26 |
+
AGID00006 39 2532 Old AMPKALPHA -0.048039
|
| 27 |
+
AGID00007 40 2535 Old AMPKALPHA_pT172 0.18569
|
| 28 |
+
AGID00193 1208 610066 Old ANNEXIN1 0.08689
|
| 29 |
+
AGID00166 1142 610668 Old ANNEXINVII 0.32329
|
| 30 |
+
AGID00371 756 1852-1/ab52615 Old AR 1.1058
|
| 31 |
+
AGID00194 1217 4432 Old ARAF 0.31757
|
| 32 |
+
AGID02191 2507 PA5-39728 Old ARAF_pS299 -0.068968
|
| 33 |
+
AGID00260 1053 sc-32761 Old ARID1A -0.12098
|
| 34 |
+
AGID00264 1560 HPA029318 Old ASNS -0.74493
|
| 35 |
+
AGID00276 1612 3415 Set163 Atg3 -0.1434501
|
| 36 |
+
AGID00309 1775 13507 Set163 Atg4B 0.2387895
|
| 37 |
+
AGID00310 1776 12994 Set163 Atg5 0.2499499
|
| 38 |
+
AGID00277 1613 8558 Set163 Atg7 0
|
| 39 |
+
AGID00242 1363 2873 Old ATM -0.70314
|
| 40 |
+
AGID02142 2447 13050 Set163 ATM_pS1981 -0.03631514
|
| 41 |
+
AGID00217 1289 ab14748 Set163 ATP5A -0.2531006
|
| 42 |
+
AGID02145 2451 PA5-43776 Set163 ATP5H 0.657345
|
| 43 |
+
AGID02150 2456 13934 Set163 ATR 0.389667
|
| 44 |
+
AGID00315 1795 ab178407 Set163 ATR_pS428 -0.7881663
|
| 45 |
+
AGID00268 1569 ab97508 Set163 ATRX -0.9290926
|
| 46 |
+
AGID00391 2332 14475 Set163 Aurora-A -0.0558
|
| 47 |
+
AGID00392 2333 2914 Set163 Aurora-ABC_pT288_pT232_pT198 0.02854001
|
| 48 |
+
AGID02195 2512 MA5-27890 Set163 Aurora-B -0.3129963
|
| 49 |
+
AGID00215 1271 8661 Old AXL 0.47202
|
| 50 |
+
AGID02143 2449 8457 Set163 b-Actin 0.5009797
|
| 51 |
+
AGID00179 1170 9565 Set163 b-Catenin_pT41_S45 0.316865
|
| 52 |
+
AGID00301 1725 14058 Set163 B7-H3 0.08253909
|
| 53 |
+
AGID00302 1726 14572 Set163 B7-H4 0.07551467
|
| 54 |
+
AGID00008 63 9291 Old BAD_pS112 -0.11403
|
| 55 |
+
AGID00009 71 1542-1/ab32371 Old BAK 0.24706
|
| 56 |
+
AGID00192 1207 sc-28383 Old BAP1C4 -0.42018
|
| 57 |
+
AGID00010 73 2772 Old BAX 0.14657
|
| 58 |
+
AGID00433 80 M0887 Old BCL2 1.5014
|
| 59 |
+
AGID00219 1299 PAB8528 Old BCL2A1 0.44272
|
| 60 |
+
AGID00012 84 1018-1 Old BCLXL -0.1469
|
| 61 |
+
AGID00377 87 sc-10086 Old BECLIN -0.15858
|
| 62 |
+
AGID00011 75 9562 Old BETACATENIN -0.31408
|
| 63 |
+
AGID00013 88 1008-1/ab32060 Old BID 0.44145
|
| 64 |
+
AGID00180 90 1036-1/ab32158 Old BIM 1.0071
|
| 65 |
+
AGID00221 1311 610978 Set163 BiP-GRP78 -0.2728756
|
| 66 |
+
AGID00373 2194 07-507 Set163 BMK1-Erk5_pT218_Y220 -0.35418
|
| 67 |
+
AGID00355 92 1647/ab33899 Old BRAF -0.50501
|
| 68 |
+
AGID00014 94 2696 Old BRAF_pS445 0.044423
|
| 69 |
+
AGID00445 761 9012 Old BRCA2 0.024903
|
| 70 |
+
AGID00266 1567 13440 Old BRD4 -0.43906
|
| 71 |
+
AGID00168 1146 2865 Set163 c-Abl_pY412 0.6091193
|
| 72 |
+
AGID00278 1615 3130 Set163 c-IAP2 -0.1982251
|
| 73 |
+
AGID00345 1990 5649 Old CA9 NA
|
| 74 |
+
AGID00265 1565 2862 Old CABL 0.083565
|
| 75 |
+
AGID00429 2407 2679 Set163 Calnexin 0.6228297
|
| 76 |
+
AGID00176 1165 9496 Set163 Caspase-8-cleaved 0.7061849
|
| 77 |
+
AGID00623 111 9665 Old CASPASE3 -0.40222
|
| 78 |
+
AGID00015 109 9491 Old CASPASE7CLEAVEDD198 -0.55373
|
| 79 |
+
AGID00118 951 9746 Old CASPASE8 0.14419
|
| 80 |
+
AGID00537 935 551246 Old CASPASE9 NA
|
| 81 |
+
AGID00016 114 3238 Old CAVEOLIN1 0.90586
|
| 82 |
+
AGID00358 2100 ab76000 Set163 CD134 0.5661886
|
| 83 |
+
AGID00303 1737 826701 Set163 CD171 -0.74543
|
| 84 |
+
AGID00410 125 1632-1/ab78237 Old CD20 0.20184
|
| 85 |
+
AGID00220 1308 ab28340 Old CD26 0.29684
|
| 86 |
+
AGID00191 1206 610467 Set163 CD29 -0.2031404
|
| 87 |
+
AGID00017 127 M0823 Old CD31 0.16488
|
| 88 |
+
AGID00369 2174 ab108403 Set163 CD38 0.69394
|
| 89 |
+
AGID00359 2104 ab133616 Set163 CD4 0.9618687
|
| 90 |
+
AGID00411 1398 3570 Set163 CD44 0.2804549
|
| 91 |
+
AGID00237 1352 M070101-2 Set163 CD45 0.1032998
|
| 92 |
+
AGID00115 937 611016 Old CD49B -0.025778
|
| 93 |
+
AGID02171 2482 91882 Set163 CD86 0.09959999
|
| 94 |
+
AGID00329 1873 4688 Set163 cdc25C -0.581915
|
| 95 |
+
AGID00227 1332 4651 Set163 Cdc42 0.08997978
|
| 96 |
+
AGID00422 2396 3387 Set163 Cdc6 0.5154799
|
| 97 |
+
AGID00501 1007 9112 Old CDK1 -0.10441
|
| 98 |
+
AGID00293 1658 ab32384 Set163 CDK1_pT14 -1.10531
|
| 99 |
+
AGID00314 1783 4539 Old CDK1_pY15 -0.72531
|
| 100 |
+
AGID00423 2397 8064 Set163 CDT1 0.7425046
|
| 101 |
+
AGID02101 2348 15102 Set163 cGAS -0.28346
|
| 102 |
+
AGID00447 2410 13460 Set163 CHD1L -0.5047318
|
| 103 |
+
AGID00189 1203 2360 Old CHK1 0.16894
|
| 104 |
+
AGID00234 1348 ab79758 Old CHK1_pS296 0.1031
|
| 105 |
+
AGID00107 903 2348 Old CHK1_pS345 0.018066
|
| 106 |
+
AGID00018 146 3440 Old CHK2 -0.31808
|
| 107 |
+
AGID00019 147 2197 Old CHK2_pT68 -0.20553
|
| 108 |
+
AGID00527 2078 4952 Old CIAP -0.13128
|
| 109 |
+
AGID00350 2018 3793 Set163 CIITA 0.24264
|
| 110 |
+
AGID00434 155 9164 Old CJUN_pS73 -0.0018988
|
| 111 |
+
AGID00020 157 1522-1/ab32363 Old CKIT 0.92238
|
| 112 |
+
AGID00400 852 NB100-91714 Old CLAUDIN7 -0.029144
|
| 113 |
+
AGID00466 726 3127 Old CMET 0.17806
|
| 114 |
+
AGID00079 727 3129 Old CMET_pY1235 -0.030566
|
| 115 |
+
AGID00167 161 9402 Old CMYC -0.11471
|
| 116 |
+
AGID00292 1656 11130-1-AP Old COG3 -0.076094
|
| 117 |
+
AGID00021 171 sc-20649 Old COLLAGENVI 1.4482
|
| 118 |
+
AGID00141 1069 459230 Old COMPLEXIISUBUNIT30 NA
|
| 119 |
+
AGID00267 1568 3512 Set163 Connexin-43 -0.9592003
|
| 120 |
+
AGID00269 1571 6434 Set163 Coup-TFII 0.44389
|
| 121 |
+
AGID00150 1116 4850 Set163 Cox-IV -0.1038507
|
| 122 |
+
AGID00195 1218 4842 Set163 Cox2 0.17959
|
| 123 |
+
AGID00188 803 05-739 Old CRAF -0.08694
|
| 124 |
+
AGID00022 179 9427 Old CRAF_pS338 -0.095661
|
| 125 |
+
AGID00023 181 9197 Set163 Creb 0.8610089
|
| 126 |
+
AGID00393 2334 9198 Set163 CREB_pS133 -0.1399579
|
| 127 |
+
AGID00365 2155 4980 Set163 CSK 0.50193
|
| 128 |
+
AGID00367 2160 9201 Set163 CtIP 0.5690347
|
| 129 |
+
AGID00536 2096 ab107198 Old CTLA4 NA
|
| 130 |
+
AGID00025 198 2936 Set163 Cyclin-D3 -0.3171601
|
| 131 |
+
AGID00024 192 1495-1/ab32053 Old CYCLINB1 -1.4884
|
| 132 |
+
AGID00382 194 sc-718 Old CYCLIND1 0.17757
|
| 133 |
+
AGID00437 199 sc-25303 Old CYCLINE1 -1.0432
|
| 134 |
+
AGID00449 202 1142-1 Old CYCLINE2 -0.3312
|
| 135 |
+
AGID00209 1257 ab110324 Set163 Cyclophilin-F -0.2926903
|
| 136 |
+
AGID00247 1379 ab48389 Set163 D-a-Tubulin -0.345875
|
| 137 |
+
AGID00308 1770 GTX10524 Set163 DAPK1_pS308 -0.5432601
|
| 138 |
+
AGID00304 1744 ab51601 Set163 DAPK2 -0.1314652
|
| 139 |
+
AGID00343 1980 6998 Set163 DDB-1 -0.1058901
|
| 140 |
+
AGID00427 2402 5583 Set163 DDR1 0.02615423
|
| 141 |
+
AGID00428 2403 SAB4504671 Set163 DDR1_pY513 -0.61119
|
| 142 |
+
AGID00532 1273 Bast Lab Old DIRAS3 0.35638
|
| 143 |
+
AGID00104 891 ab76008 Old DJ1 0.67717
|
| 144 |
+
AGID02146 2452 4658 Set163 DM-Histone-H3 0.6625946
|
| 145 |
+
AGID00386 1397 ab32521 Set163 DM-K9-Histone-H3 -0.173495
|
| 146 |
+
AGID00352 2030 14649 Set163 DNA-Ligase-IV 0.2404047
|
| 147 |
+
AGID00407 2371 13609 Set163 DNA_POLG 0.2469199
|
| 148 |
+
AGID00399 2344 5032 Set163 DNMT1 -0.08852013
|
| 149 |
+
AGID00409 2373 5391 Set163 DRP1 0.05913843
|
| 150 |
+
AGID00253 1406 5149 Old DUSP4 0.90659
|
| 151 |
+
AGID00334 1936 ab76310 Set163 DUSP6 0.3432397
|
| 152 |
+
AGID00116 940 3218 Old DVL3 -0.75751
|
| 153 |
+
AGID00211 1261 sc-251 Old E2F1 NA
|
| 154 |
+
AGID00148 1099 3195 Old ECADHERIN -0.61945
|
| 155 |
+
AGID00135 1060 2332 Old EEF2 -0.28256
|
| 156 |
+
AGID00136 1061 3692 Old EEF2K 0.78675
|
| 157 |
+
AGID00152 1120 2232 Old EGFR -0.045049
|
| 158 |
+
AGID00450 217 2234 Old EGFR_pY1068 0.34572
|
| 159 |
+
AGID00026 221 1124-1/ab32578 Old EGFR_pY1173 0.31583
|
| 160 |
+
AGID00078 722 9742 Old EIF4E -0.01312
|
| 161 |
+
AGID00328 1871 ab76256 Set163 eIF4E_pS209 0.4698897
|
| 162 |
+
AGID00154 1124 2498 Old EIF4G -0.64513
|
| 163 |
+
AGID00027 228 9181 Set163 Elk1_pS383 0.552445
|
| 164 |
+
AGID00235 1350 M061329-2 Set163 EMA 1.74476
|
| 165 |
+
AGID00394 2337 3810 Set163 Enolase-1 0.2582748
|
| 166 |
+
AGID00395 2338 8171 Set163 Enolase-2 0.313065
|
| 167 |
+
AGID00196 1219 GTX629542 Old ENY2 -0.4251
|
| 168 |
+
AGID00438 1849 A302-024A Set163 EphA2 0.31739
|
| 169 |
+
AGID00552 2422 6347 Set163 EphA2_pS897 -0.5807
|
| 170 |
+
AGID00553 2423 12677 Set163 EphA2_pY588 -0.3102685
|
| 171 |
+
AGID00075 693 556347 Old EPPK1 -0.27245
|
| 172 |
+
AGID00335 238 RM-9101 Old ERALPHA 1.9542
|
| 173 |
+
AGID00029 241 1091-1/ab32396 Old ERALPHA_pS118 -0.26463
|
| 174 |
+
AGID00240 247 MS-671 Old ERCC1 -0.091521
|
| 175 |
+
AGID00239 1355 11331-1-AP Old ERCC5 -0.032057
|
| 176 |
+
AGID00484 249 sc-154 Old ERK2 -0.010874
|
| 177 |
+
AGID00372 2193 3552 Set163 Erk5 0.61972
|
| 178 |
+
AGID00405 2369 13826 Set163 ERRalpha 0.2885049
|
| 179 |
+
AGID00187 1200 A303-501A Old ETS1 0.48997
|
| 180 |
+
AGID00511 2492 2593 Set163 EVI1 0.5753244
|
| 181 |
+
AGID00485 1284 4905 Old EZH2 NA
|
| 182 |
+
AGID00030 252 1700-1/ab40794 Set163 FAK 0.9075
|
| 183 |
+
AGID02151 2457 8556 Set163 FAK_pY397 -0.4110766
|
| 184 |
+
AGID00171 1156 3180 Old FASN 0.59112
|
| 185 |
+
AGID00356 2085 500-P18/10775-082 Set163 FGF-basic 1.098505
|
| 186 |
+
AGID00031 262 1574-1/ab45688 Old FIBRONECTIN 0.58789
|
| 187 |
+
AGID00339 1959 4403 Set163 FN14 -0.442905
|
| 188 |
+
AGID02152 2458 20459 Old FOXM1 -0.53894
|
| 189 |
+
AGID00378 269 9467 Old FOXO3A 0.13765
|
| 190 |
+
AGID02197 2515 orb6051 Old FOXO3A_pS318S321 0.12563
|
| 191 |
+
AGID02167 2475 PA5-64616 Set163 FRS2-alpha_pY196 0.01815001
|
| 192 |
+
AGID02213 2575 ab124892 Set163 FTO -0.4389
|
| 193 |
+
AGID02141 2446 12263 Old G6PD 0.075238
|
| 194 |
+
AGID00117 943 3239 Old GAB2 -0.07257
|
| 195 |
+
AGID00412 274 AM4300 Old GAPDH -1.9667
|
| 196 |
+
AGID00086 764 558686 Old GATA3 1.6456
|
| 197 |
+
AGID00383 1578 4253 Old GATA6 0.41675
|
| 198 |
+
AGID00289 1634 12601-1-AP Set163 GCLC -0.291275
|
| 199 |
+
AGID00305 1745 ab124827 Set163 GCLM -0.14613
|
| 200 |
+
AGID00212 1263 3305 Old GCN5L2 -0.49164
|
| 201 |
+
AGID00270 1579 3538 Set163 Gli1 -1.25054
|
| 202 |
+
AGID00263 1520 ab69838 Set163 Gli3 -0.3471111
|
| 203 |
+
AGID00548 2530 3660 Set163 Glucocorticoid-Receptor 1.095505
|
| 204 |
+
AGID00387 1617 12793 Set163 Glutamate-D1-2 0.2944889
|
| 205 |
+
AGID00262 1491 ab156876 Set163 Glutaminase -0.2126501
|
| 206 |
+
AGID00319 1807 4275 Set163 Granzyme-B 0.6915849
|
| 207 |
+
AGID00368 2169 ab183737 Set163 GRB7 -0.7834208
|
| 208 |
+
AGID00396 2339 3593 Set163 Grp75 0.09493494
|
| 209 |
+
AGID00174 1163 9315 Set163 GSK-3B -0.07192087
|
| 210 |
+
AGID00502 1082 9336 Old GSK3_pS9 -0.43834
|
| 211 |
+
AGID00033 284 sc-7291 Old GSK3ALPHABETA -0.13722
|
| 212 |
+
AGID00034 285 9331 Old GSK3ALPHABETA_pS21S9 -0.25027
|
| 213 |
+
AGID00129 1035 3886 Old GYS NA
|
| 214 |
+
AGID00130 1036 3891 Old GYS_pS641 NA
|
| 215 |
+
AGID01354 1342 9718 Set163 H2AX_pS139 -0.19932
|
| 216 |
+
AGID00363 1409 MA1-2022 Set163 H2AX_pS140 -0.4086651
|
| 217 |
+
AGID00131 1038 MS-325-P1 Old HER2 -0.14307
|
| 218 |
+
AGID00142 299 06-229 Old HER2_pY1248 0.13876
|
| 219 |
+
AGID00110 911 sc-285 Old HER3 0.092189
|
| 220 |
+
AGID00080 728 4791 Old HER3_pY1289 0.15151
|
| 221 |
+
AGID00103 890 2573 Old HEREGULIN 0.0029568
|
| 222 |
+
AGID00271 1582 11988 Set163 HES1 0.4454098
|
| 223 |
+
AGID00397 2340 2024 Set163 Hexokinase-I 0.09560976
|
| 224 |
+
AGID00442 1023 2867 Set163 Hexokinase-II -0.6023016
|
| 225 |
+
AGID00419 1402 610958 Old HIF1ALPHA NA
|
| 226 |
+
AGID00205 1250 ab1791 Set163 Histone-H3 1.77649
|
| 227 |
+
AGID00398 2341 3377 Set163 Histone-H3_pS10 0.6212649
|
| 228 |
+
AGID00332 1901 ab128959 Set163 HLA-DQA1 1.196619
|
| 229 |
+
AGID00333 1902 14832-1-AP Set163 HMHA1 1.14246
|
| 230 |
+
AGID00035 321 2402 Set163 HSP27 -0.3175651
|
| 231 |
+
AGID00036 323 2401 Set163 HSP27_pS82 -0.42237
|
| 232 |
+
AGID00320 1808 12165 Set163 HSP60 0.1457848
|
| 233 |
+
AGID00037 325 4872 Old HSP70 0.2011
|
| 234 |
+
AGID00366 2158 86630 Set163 IDO 1.011035
|
| 235 |
+
AGID00197 1221 3024 Old IGF1R_pY1135Y1136 0.32578
|
| 236 |
+
AGID00038 335 3922 Old IGFBP2 -0.55753
|
| 237 |
+
AGID00090 793 611504 Set163 IGFBP3 -0.6250703
|
| 238 |
+
AGID00039 336 3027 Set163 IGFRb 0.13385
|
| 239 |
+
AGID00336 1949 12153 Set163 IL-6 0.4435647
|
| 240 |
+
AGID02221 2583 57145 Set163 IMP3 -0.3006701
|
| 241 |
+
AGID02153 2459 14543 Old INPP4B 0.83872
|
| 242 |
+
AGID00272 1586 3025 Set163 IR-b -0.14635
|
| 243 |
+
AGID00519 2519 4302 Set163 IRF-3 -0.3360747
|
| 244 |
+
AGID00520 2520 4947 Set163 IRF-3_pS396 -0.5069805
|
| 245 |
+
AGID00223 1316 sc-497 Old IRF1 -0.013669
|
| 246 |
+
AGID00092 802 06-248 Old IRS1 0.23556
|
| 247 |
+
AGID00040 371 4502 Set163 IRS2 0.1888095
|
| 248 |
+
AGID00250 1394 sc-13157 Old JAB1 0.36893
|
| 249 |
+
AGID00256 1413 ab109536 Set163 Jagged1 -0.06897447
|
| 250 |
+
AGID00177 1166 3230 Old JAK2 0.015064
|
| 251 |
+
AGID00758 377 4671 Old JNK_pT183Y185 0.13365
|
| 252 |
+
AGID02136 2439 PA5-28262 Old JNK2 0.95011
|
| 253 |
+
AGID00307 1757 ab10484 Set163 KAP1 -0.4255555
|
| 254 |
+
AGID00528 904 2180 Old KU80 -0.17314
|
| 255 |
+
AGID00375 2237 HPA028732 Set163 LAD1 -0.01574499
|
| 256 |
+
AGID00290 1643 IHC-00439 Set163 Lasu1 -0.840195
|
| 257 |
+
AGID00279 1618 4108 Set163 LC3A-B 0.2857547
|
| 258 |
+
AGID00042 397 2752 Old LCK 0.44788
|
| 259 |
+
AGID00119 976 3582 Old LDHA NA
|
| 260 |
+
AGID00533 977 ab85319 Old LDHB NA
|
| 261 |
+
AGID00529 1477 3050 Old LKB1 0.11207
|
| 262 |
+
AGID00244 1367 2568 Set163 LRP6_pS1490 -0.677865
|
| 263 |
+
AGID00439 2424 2796 Set163 Lyn 0.5592649
|
| 264 |
+
AGID02154 2460 4370 Old MAPK_pT202Y204 1.4386
|
| 265 |
+
AGID00198 1222 5453 Set163 Mcl-1 0.05825896
|
| 266 |
+
AGID00288 1633 AB3314P Set163 MCT4 -0.4861901
|
| 267 |
+
AGID00175 1164 3521 Set163 MDM2_pS166 -0.07252499
|
| 268 |
+
AGID00044 417 1235-1/ab32576 Old MEK1 0.64876
|
| 269 |
+
AGID00143 1076 9154 Old MEK1_pS217S221 0.50734
|
| 270 |
+
AGID00201 1243 9125 Set163 MEK2 -0.1763205
|
| 271 |
+
AGID00361 2118 ab51061 Set163 MelanA -0.283825
|
| 272 |
+
AGID00362 2119 ab137078 Set163 Melanoma-gp100 0.6117299
|
| 273 |
+
AGID00337 1951 12711 Set163 MERIT40 -0.006635629
|
| 274 |
+
AGID00338 1952 12110 Set163 MERIT40_pS29 -0.1784
|
| 275 |
+
AGID02212 2574 ab195352 Set163 METTL3 -0.51977
|
| 276 |
+
AGID00225 1323 sc-20121 Set163 MIF 0.57699
|
| 277 |
+
AGID00137 1062 WH0054206M1 Old MIG6 -0.066329
|
| 278 |
+
AGID00403 2117 ab20663 Set163 MITF 0.5031746
|
| 279 |
+
AGID00503 1067 ab3298 Old MITOCHONDRIA NA
|
| 280 |
+
AGID00321 1809 14739 Set163 Mitofusin-1 0.2146412
|
| 281 |
+
AGID00322 1810 11925 Set163 Mitofusin-2 0.2594199
|
| 282 |
+
AGID00389 2324 3515 Set163 MLH1 -0.4228501
|
| 283 |
+
AGID00312 1780 14993 Set163 MLKL -0.4480801
|
| 284 |
+
AGID00402 2359 MAB3328 Set163 MMP14 -0.3479501
|
| 285 |
+
AGID00045 435 4022 Set163 MMP2 0.6456871
|
| 286 |
+
AGID00122 1005 2195 Set163 Mnk1 -0.1858912
|
| 287 |
+
AGID00331 1899 sc-377312 Set163 MR1 -0.09141518
|
| 288 |
+
AGID00273 1589 ab103319 Set163 MRAP -0.23564
|
| 289 |
+
AGID00530 440 4847 Old MRE11 0.22517
|
| 290 |
+
AGID00390 905 2850 Old MSH2 -0.16084
|
| 291 |
+
AGID00138 1063 22030002 Old MSH6 -0.8054
|
| 292 |
+
AGID00299 1675 ab76148 Set163 MSI2 -0.07409499
|
| 293 |
+
AGID00232 1344 ab14705 Set163 MTCO1 -0.3441117
|
| 294 |
+
AGID00046 444 2983 Old MTOR -0.24946
|
| 295 |
+
AGID00047 446 2971 Old MTOR_pS2448 0.020591
|
| 296 |
+
AGID00204 1247 H00009788-M01A Set163 MTSS1 -0.4015052
|
| 297 |
+
AGID00401 1139 21370002 Old MYH11 0.95586
|
| 298 |
+
AGID00291 1647 3403 Old MYOSINIIA -0.017725
|
| 299 |
+
AGID00173 1160 5026 Old MYOSINIIA_pS1943 0.01116
|
| 300 |
+
AGID00318 1803 4282 Set163 Myt1 -0.5858802
|
| 301 |
+
AGID00216 1274 5795-1/ab129189 Old NAPSINA NA
|
| 302 |
+
AGID00418 452 4061 Old NCADHERIN 0.30542
|
| 303 |
+
AGID00156 1126 3217 Old NDRG1_pT346 -0.11354
|
| 304 |
+
AGID02133 2436 PA5-45913 Set163 NDUFB4 0.39948
|
| 305 |
+
AGID00134 1046 22710002 Old NF2 -0.22529
|
| 306 |
+
AGID00048 457 3033 Old NFKBP65_pS536 -0.73291
|
| 307 |
+
AGID02155 2461 3608 Old NOTCH1 0.18151
|
| 308 |
+
AGID00340 1969 4147 Set163 Notch1-cleaved -0.1520952
|
| 309 |
+
AGID00087 767 sc-5593 Set163 Notch3 -0.29002
|
| 310 |
+
AGID00258 1420 3187 Set163 NQO1 -0.9065252
|
| 311 |
+
AGID00162 1136 sc-31 Old NRAS 0.26341
|
| 312 |
+
AGID00257 1419 12721 Old NRF2 NA
|
| 313 |
+
AGID00297 1669 2750 Set163 Oct-4 0.008434998
|
| 314 |
+
AGID00420 466 1712-1/ab40803 Old P16INK4A 0.2304
|
| 315 |
+
AGID00384 470 sc-6246 Old P21 0.10261
|
| 316 |
+
AGID00105 897 1591-1/ab32034 Old P27 0.22047
|
| 317 |
+
AGID00096 842 AF1555 Old P27_pT157 -0.059229
|
| 318 |
+
AGID00099 878 ab64949 Old P27_pT198 -0.14713
|
| 319 |
+
AGID00181 1175 9228 Set163 p38-a -0.0599011
|
| 320 |
+
AGID00098 479 9211 Old P38_pT180Y182 0.21708
|
| 321 |
+
AGID00049 478 9212 Old P38MAPK 0.19613
|
| 322 |
+
AGID00151 1119 4695 Set163 p44-42-MAPK 0.875425
|
| 323 |
+
AGID00050 481 9282 Old P53 -0.51572
|
| 324 |
+
AGID00490 1187 610833 Old P62LCKLIGAND -0.35295
|
| 325 |
+
AGID00545 1415 ab53039 Old P63 NA
|
| 326 |
+
AGID00052 494 9205 Old P70S6K_pT389 -0.090012
|
| 327 |
+
AGID00051 493 1494-1/ab32529 Old P70S6K1 -0.67654
|
| 328 |
+
AGID00085 759 9347 Old P90RSK 0.24347
|
| 329 |
+
AGID00531 770 9344 Old P90RSK_pT359S363 0.0051328
|
| 330 |
+
AGID00182 1178 9346 Set163 p90RSK_pT573 0.1503199
|
| 331 |
+
AGID00053 499 612024 Old PAI1 0.15556
|
| 332 |
+
AGID00224 1322 HPA035895 Set163 PAICS -0.08923999
|
| 333 |
+
AGID00323 1811 2602 Set163 PAK1 -0.09693042
|
| 334 |
+
AGID02199 2517 PA5-69540 Set163 PAK4 -0.5480951
|
| 335 |
+
AGID00245 1370 4336-BPC-100 Set163 PAR -0.8008205
|
| 336 |
+
AGID00374 2209 66564 Set163 PARG 0.06394973
|
| 337 |
+
AGID00370 1372 sc-7150 Old PARP1 NA
|
| 338 |
+
AGID00468 501 9546 Old PARPCLEAVED -0.027468
|
| 339 |
+
AGID00274 1591 ab53715 Set163 Patched -0.16902
|
| 340 |
+
AGID00513 2486 60433 Set163 PAX6 0.3690299
|
| 341 |
+
AGID00441 1621 9857 Set163 PAX8 -0.1232164
|
| 342 |
+
AGID00054 504 2542 Old PAXILLIN -0.096958
|
| 343 |
+
AGID00055 509 2130 Old PCADHERIN 0.15184
|
| 344 |
+
AGID00248 511 ab29 Old PCNA -0.38461
|
| 345 |
+
AGID00413 2095 43248 Old PDCD1 NA
|
| 346 |
+
AGID00094 816 600-401-965 Old PDCD4 -0.73258
|
| 347 |
+
AGID00385 1225 3169 Set163 PDGFRB 0.673045
|
| 348 |
+
AGID00210 1258 ab110332 Set163 PDH -0.1888161
|
| 349 |
+
AGID00324 1817 3205 Set163 PDHA1 0.4196343
|
| 350 |
+
AGID00280 1622 3820 Set163 PDHK1 -0.04203
|
| 351 |
+
AGID00056 515 3062 Old PDK1 0.30048
|
| 352 |
+
AGID00057 516 3061 Old PDK1_pS241 0.31261
|
| 353 |
+
AGID00300 1234 sc-19090 Old PDL1 -0.027117
|
| 354 |
+
AGID00124 1017 2780 Old PEA15 0.27265
|
| 355 |
+
AGID00125 1018 44-836G Old PEA15_pS116 -0.5833
|
| 356 |
+
AGID00440 2429 3192 Set163 PERK 0.03133939
|
| 357 |
+
AGID02207 2569 ab192876 Set163 PGM1 -0.2563006
|
| 358 |
+
AGID00281 1623 13428 Set163 PHGDH -0.6417606
|
| 359 |
+
AGID00425 2399 22789-1-AP Set163 PHLPP 0.12586
|
| 360 |
+
AGID00226 1330 sc-376412 Set163 PI3K-p110-b -0.18278
|
| 361 |
+
AGID00093 808 4255 Old PI3KP110ALPHA 0.15695
|
| 362 |
+
AGID00058 523 06-195 Old PI3KP85 0.43218
|
| 363 |
+
AGID00296 1667 5675 Set163 PKA-a -0.2096351
|
| 364 |
+
AGID00259 1426 9375 Set163 PKC-a-b-II_pT638_T641 -0.21581
|
| 365 |
+
AGID00172 529 05-154 Old PKCALPHA -0.43945
|
| 366 |
+
AGID00460 530 06-822 Old PKCALPHA_pS657 -0.052808
|
| 367 |
+
AGID00114 932 07-875 Old PKCDELTA_pS664 -0.14298
|
| 368 |
+
AGID00163 1137 9371 Old PKCPANBETAII_pS660 -0.11056
|
| 369 |
+
AGID00126 1025 4053 Old PKM2 NA
|
| 370 |
+
AGID00512 2489 5690 Set163 PLC-gamma1 -0.8826908
|
| 371 |
+
AGID02138 2441 GTX133463 Set163 PLC-gamma2_pY759 0.2601148
|
| 372 |
+
AGID00084 754 4513 Set163 PLK1 -0.1012501
|
| 373 |
+
AGID00203 1246 22510002 Set163 PMS2 0.16925
|
| 374 |
+
AGID00207 1254 ab14734 Set163 Porin -0.2509
|
| 375 |
+
AGID00381 549 1483-1/ab32085 Old PR -0.029598
|
| 376 |
+
AGID00081 738 AHO1031 Set163 PRAS40 -0.29283
|
| 377 |
+
AGID00082 739 44-1100G Old PRAS40_pT246 -0.21693
|
| 378 |
+
AGID00424 2398 OAAF05458 Set163 PRC1_pT481 0.20403
|
| 379 |
+
AGID00492 1205 HPA007730 Old PRDX1 0.050781
|
| 380 |
+
AGID00190 1204 ab102739 Old PREX1 0.74774
|
| 381 |
+
AGID00061 566 9552 Old PTEN 0.4414
|
| 382 |
+
AGID00364 2154 ab76942 Set163 PTPN12 0.05530985
|
| 383 |
+
AGID00218 1290 4976 Set163 Puma 0.673545
|
| 384 |
+
AGID00200 1242 SAB2900066 Old PYGB NA
|
| 385 |
+
AGID00535 1494 ab61013 Old PYGL NA
|
| 386 |
+
AGID00202 1245 H00005837-M10 Old PYGM NA
|
| 387 |
+
AGID00275 1607 3291 Set163 Pyk2_pY402 -0.3450256
|
| 388 |
+
AGID00145 1083 3539 Old RAB11 1.1203
|
| 389 |
+
AGID00169 1150 4314 Old RAB25 0.2173
|
| 390 |
+
AGID00342 1979 24555 Set163 Rad23A -0.1378351
|
| 391 |
+
AGID00261 987 05-525 Old RAD50 -0.3712
|
| 392 |
+
AGID00360 579 NA71 Old RAD51 -0.002005
|
| 393 |
+
AGID00158 1128 2280 Old RAPTOR 0.43737
|
| 394 |
+
AGID00059 552 9309 Old RB -0.17899
|
| 395 |
+
AGID00060 557 9308 Old RB_pS807S811 -0.64416
|
| 396 |
+
AGID00164 1138 21390002 Old RBM15 -1.0546
|
| 397 |
+
AGID00547 735 3221 Old RET_pY905 NA
|
| 398 |
+
AGID00097 847 MAB3426 Set163 Rheb -0.3268201
|
| 399 |
+
AGID00159 1129 2114 Old RICTOR -0.28991
|
| 400 |
+
AGID00160 1130 3806 Old RICTOR_pT1135 0.24933
|
| 401 |
+
AGID00282 1624 4926 Set163 RIP -0.956065
|
| 402 |
+
AGID00283 1625 13526 Set163 RIP3 -0.1120007
|
| 403 |
+
AGID00416 1368 2208 Set163 RPA32 0.464255
|
| 404 |
+
AGID00246 1375 A300-245A Set163 RPA32_pS4_S8 -0.4620511
|
| 405 |
+
AGID00341 1978 3388 Set163 RRM1 -0.2063352
|
| 406 |
+
AGID00344 1981 PA5-27856 Set163 RRM2 -0.4966267
|
| 407 |
+
AGID00554 2425 8408 Set163 RSK1 -0.08165784
|
| 408 |
+
AGID00353 2031 13018 Set163 S100A4 0.125465
|
| 409 |
+
AGID00330 1874 2317 Old S6 -1.7687
|
| 410 |
+
AGID00062 600 2211 Old S6_pS235S236 -1.0846
|
| 411 |
+
AGID00063 601 2215 Old S6_pS240S244 -1.3669
|
| 412 |
+
AGID00157 1127 sc-58420 Old SCD1 0.12346
|
| 413 |
+
AGID00230 1339 11998 Set163 SDHA 0.02986
|
| 414 |
+
AGID00294 1039 ab69836 Old SETD2 0.011517
|
| 415 |
+
AGID00161 1131 32-4500 Old SF2 0.049243
|
| 416 |
+
AGID02179 2495 3534 Set163 SFRP1 -0.01632603
|
| 417 |
+
AGID00431 2411 12103 Set163 SGK1 0.5463493
|
| 418 |
+
AGID00430 2409 8156 Set163 SGK3 0.159145
|
| 419 |
+
AGID02168 2476 bs-3413R Old SHC_pY317 0.41104
|
| 420 |
+
AGID00376 2241 3397 Set163 SHP2 0.6741698
|
| 421 |
+
AGID00183 1180 3751 Old SHP2_pY542 0.36039
|
| 422 |
+
AGID02208 2570 ab8120 Set163 SIRP-alpha -0.6190657
|
| 423 |
+
AGID00222 1133 sc-99002 Old SLC1A5 -0.41657
|
| 424 |
+
AGID00255 1411 sc-136891 Set163 Slfn11 -0.1481301
|
| 425 |
+
AGID00064 610 2954 Old SMAC -0.15857
|
| 426 |
+
AGID00113 922 1649-1/ab33902 Old SMAD1 -0.10876
|
| 427 |
+
AGID00091 796 1735-1/ab40854 Old SMAD3 -0.064358
|
| 428 |
+
AGID02160 2467 46535 Old SMAD4 -0.08086
|
| 429 |
+
AGID00065 616 3895 Old SNAIL -0.1267
|
| 430 |
+
AGID00325 1818 4266 Set163 SOD1 -0.3006715
|
| 431 |
+
AGID00380 1328 13141 Set163 SOD2 0.6473948
|
| 432 |
+
AGID00298 1670 2748 Set163 Sox2 -0.1175402
|
| 433 |
+
AGID00066 621 05-184 Old SRC -0.31705
|
| 434 |
+
AGID02157 2463 6943 Old SRC_pY416 -0.69033
|
| 435 |
+
AGID00068 626 2105 Old SRC_pY527 0.6791
|
| 436 |
+
AGID00185 1197 4904 Set163 Stat3 0.2035768
|
| 437 |
+
AGID00388 637 9131 Old STAT3_pY705 0.69157
|
| 438 |
+
AGID00069 638 1289-1/ab32043 Old STAT5ALPHA 0.43429
|
| 439 |
+
AGID00077 718 1972-1/ab52630 Old STATHMIN 0.079298
|
| 440 |
+
AGID00357 2099 13647 Set163 STING 1.269605
|
| 441 |
+
AGID00128 1033 sc-1240 Old SYK -1.2456
|
| 442 |
+
AGID00070 646 05-348 Set163 Tau -0.537715
|
| 443 |
+
AGID00327 777 2149 Old TAZ 0.27929
|
| 444 |
+
AGID00228 1333 7495 Set163 TFAM 0.03924368
|
| 445 |
+
AGID00165 1140 22500002 Old TFRC -1.8836
|
| 446 |
+
AGID00149 1107 S1711/ab137573 Old TIGAR -0.060695
|
| 447 |
+
AGID00109 908 MS-224-P1 Old TRANSGLUTAMINASE -0.41546
|
| 448 |
+
AGID00406 2370 612344 Set163 TRAP1 -0.29645
|
| 449 |
+
AGID00559 2537 PA5-34561 Set163 TRIM24 -0.4115372
|
| 450 |
+
AGID00306 1756 ab167154 Set163 TRIM25 -0.7178257
|
| 451 |
+
AGID00426 2400 PA5-52193 Set163 TRIP13 0.05608501
|
| 452 |
+
AGID00155 1125 4906 Old TSC1 -0.042423
|
| 453 |
+
AGID00144 1081 2044-1/ab76013 Old TTF1 NA
|
| 454 |
+
AGID00071 670 1613-1/ab32554 Old TUBERIN -0.18028
|
| 455 |
+
AGID02194 2511 ab109403 Old TUBERIN_pT1462 0.12328
|
| 456 |
+
AGID00417 1842 ab173300 Set163 TUFM 0.19696
|
| 457 |
+
AGID00238 1353 sc-81417 Set163 Twist -0.21137
|
| 458 |
+
AGID00436 1080 5585 Set163 Tyro3 0.6694495
|
| 459 |
+
AGID00295 1662 5546 Set163 U-Histone-H2B 1.675135
|
| 460 |
+
AGID00214 1270 HPA005651 Set163 UBAC1 0.4867449
|
| 461 |
+
AGID00351 2020 sc-136145 Set163 UBQLN4 0.23417
|
| 462 |
+
AGID00213 1267 sc-271268 Set163 UGT1A -0.283875
|
| 463 |
+
AGID00284 1626 6888 Set163 ULK1_pS757 -0.1087679
|
| 464 |
+
AGID00208 1256 MS304/ab14745 Set163 UQCRC2 -0.49927
|
| 465 |
+
AGID00313 1781 13115 Set163 UVRAG -0.0115
|
| 466 |
+
AGID00073 678 3112 Set163 VASP 0.5541296
|
| 467 |
+
AGID00184 1181 2502 Set163 VAV1 0.9213041
|
| 468 |
+
AGID00074 688 2479 Old VEGFR2 0.25821
|
| 469 |
+
AGID00421 2394 68547 Set163 VHL 0.47083
|
| 470 |
+
AGID00231 1343 SAB4200080 Set163 Vinculin 0.4494296
|
| 471 |
+
AGID00317 1802 4936 Set163 Wee1 -1.075246
|
| 472 |
+
AGID00354 2058 4910 Set163 Wee1_pS642 0.8237298
|
| 473 |
+
AGID00285 1627 12124 Set163 WIPI1 -0.57485
|
| 474 |
+
AGID00286 1628 8567 Set163 WIPI2 -0.214575
|
| 475 |
+
AGID02214 2576 ab195380 Set163 WTAP -0.1844907
|
| 476 |
+
AGID00133 1044 sc-32136 Old XBP1 0.018498
|
| 477 |
+
AGID00076 699 2042 Set163 XIAP 0.3482695
|
| 478 |
+
AGID00241 1359 sc-56813 Set163 XPA 0.582405
|
| 479 |
+
AGID00349 1354 ab3299 Set163 XPF 0.4810074
|
| 480 |
+
AGID02137 2440 PA5-29359 Old XRCC1 0.10966
|
| 481 |
+
AGID00088 780 sc-15407 Old YAP 0.19806
|
| 482 |
+
AGID00089 782 4911 Old YAP_pS127 -0.12333
|
| 483 |
+
AGID00504 700 17250002 Old YB1 -0.10023
|
| 484 |
+
AGID00095 835 2900 Old YB1_pS102 -0.033277
|
| 485 |
+
AGID02217 2579 ab220163 Set163 YTHDF2 -0.825545
|
| 486 |
+
AGID02210 2572 ab220161 Set163 YTHDF3 -1.48288
|
| 487 |
+
AGID00326 1828 2705 Set163 ZAP-70 0.8680228
|
| 488 |
+
AGID00432 2244 sc-25388 Set163 ZEB1 0.7856383
|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_TCGA-E2-A1IU-11A-02-TSB.b1e1d4f0-7a97-4a67-a15f-667ba0454e31_mask.png
ADDED
|
Git LFS Details
|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_TCGA-E2-A1IU-11A-06-TSF.96609ca3-27d5-47b7-a3b2-9f658b24a26b_mask.png
ADDED
|
Git LFS Details
|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_b188b8ae-d5f0-441e-94cb-2eacc8e4507d.methylation_array.sesame.level3betas.txt
ADDED
|
@@ -0,0 +1,3 @@
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|
|
|
|
|
|
|
|
|
|
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|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
+
oid sha256:c4f936bd637aece80b8ff9194a74166232c07ef92f0bcd369ce7ecfe4c59b777
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| 3 |
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size 13166671
|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_b188b8ae-d5f0-441e-94cb-2eacc8e4507d_noid_Red.idat
ADDED
|
@@ -0,0 +1,3 @@
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|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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oid sha256:2a4424f7cdb8a049bff80fc55a629ba89877caef15c852dbde8b2449f9a36abb
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size 8095260
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processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_d1a74583-ed45-48e8-a345-7e679f0f13ab.wxs.aliquot_ensemble_masked.maf.gz
ADDED
|
@@ -0,0 +1,3 @@
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|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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oid sha256:4a203f3e22b30234ffd49d45ae823300ee3197a19675e71994f3a2af7a8e8b8e
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size 11911
|
processed_otsu/001cef41-ff86-4d3f-a140-a647ac4b10a1_nationwidechildrens.org_biospecimen.TCGA-E2-A1IU.xml
ADDED
|
@@ -0,0 +1,618 @@
|
|
|
|
|
|
|
|
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|
|
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|
| 1 |
+
<?xml version="1.0" encoding="UTF-8"?>
|
| 2 |
+
<bio:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/biospecimen/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/biospecimen/2.7/TCGA_BCR.Biospecimen.xsd" schemaVersion="2.7" xmlns:bio="http://tcga.nci/bcr/xml/biospecimen/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:bio_shared="http://tcga.nci/bcr/xml/biospecimen/shared/2.7">
|
| 3 |
+
<admin:admin>
|
| 4 |
+
<admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
|
| 5 |
+
<admin:file_uuid xsd_ver="2.6">C5960B6E-DF0D-4BAE-8284-7929FAA07A1F</admin:file_uuid>
|
| 6 |
+
<admin:batch_number xsd_ver="1.17">120.77.0</admin:batch_number>
|
| 7 |
+
<admin:project_code xsd_ver="">TCGA</admin:project_code>
|
| 8 |
+
<admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
|
| 9 |
+
<admin:day_of_dcc_upload xsd_ver="1.17">1</admin:day_of_dcc_upload>
|
| 10 |
+
<admin:month_of_dcc_upload xsd_ver="1.17">7</admin:month_of_dcc_upload>
|
| 11 |
+
<admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
|
| 12 |
+
</admin:admin>
|
| 13 |
+
<bio:patient>
|
| 14 |
+
<admin:additional_studies/>
|
| 15 |
+
<shared:bcr_patient_barcode cde="2673794" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU</shared:bcr_patient_barcode>
|
| 16 |
+
<shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">001cef41-ff86-4d3f-a140-a647ac4b10a1</shared:bcr_patient_uuid>
|
| 17 |
+
<shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E2</shared:tissue_source_site>
|
| 18 |
+
<shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A1IU</shared:patient_id>
|
| 19 |
+
<shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 20 |
+
<bio:days_to_index precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">0</bio:days_to_index>
|
| 21 |
+
<bio:bcr_canonical_check>
|
| 22 |
+
<bio:bcr_patient_canonical_status cde="" xsd_ver="2.6" procurement_status="Completed" owner="">Canonical</bio:bcr_patient_canonical_status>
|
| 23 |
+
</bio:bcr_canonical_check>
|
| 24 |
+
<bio:samples>
|
| 25 |
+
<bio:sample>
|
| 26 |
+
<admin:additional_studies/>
|
| 27 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:sample_type_id>
|
| 28 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
|
| 29 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 30 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Primary Tumor</bio:sample_type>
|
| 31 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 32 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 33 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 34 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">270</bio:initial_weight>
|
| 35 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 36 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 37 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
|
| 38 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 39 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 40 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 41 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 42 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">136</bio:days_to_collection>
|
| 43 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 44 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 45 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A</bio:bcr_sample_barcode>
|
| 46 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">92058c44-a484-4e08-b1fe-dfe2f03a0aa1</bio:bcr_sample_uuid>
|
| 47 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 48 |
+
<bio:portions>
|
| 49 |
+
<bio:shipment_portion>
|
| 50 |
+
<admin:additional_studies/>
|
| 51 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">21</bio:portion_number>
|
| 52 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</bio:portion_sequence>
|
| 53 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A17J</bio:plate_id>
|
| 54 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">20</bio:center_id>
|
| 55 |
+
<bio:shipment_portion_day_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2</bio:shipment_portion_day_of_shipment>
|
| 56 |
+
<bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">8</bio:shipment_portion_month_of_shipment>
|
| 57 |
+
<bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2011</bio:shipment_portion_year_of_shipment>
|
| 58 |
+
<bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-21-A17J-20</bio:shipment_portion_bcr_aliquot_barcode>
|
| 59 |
+
<bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">19429156-19AD-44F5-A671-1FEF7A6E693C</bio:bcr_shipment_portion_uuid>
|
| 60 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 61 |
+
</bio:shipment_portion>
|
| 62 |
+
<bio:portion>
|
| 63 |
+
<admin:additional_studies/>
|
| 64 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
|
| 65 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
|
| 66 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">18</bio:day_of_creation>
|
| 67 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_creation>
|
| 68 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
|
| 69 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
|
| 70 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11</bio:bcr_portion_barcode>
|
| 71 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6fca18b6-bb62-4617-9d4c-43deb596ce77</bio:bcr_portion_uuid>
|
| 72 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 73 |
+
<bio:analytes>
|
| 74 |
+
<bio:analyte>
|
| 75 |
+
<admin:additional_studies/>
|
| 76 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 77 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 78 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 79 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 80 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.80</bio:a260_a280_ratio>
|
| 81 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 82 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 83 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D</bio:bcr_analyte_barcode>
|
| 84 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c10256c7-2501-4a6b-9ecd-d268e78a42c5</bio:bcr_analyte_uuid>
|
| 85 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 86 |
+
<bio:aliquots>
|
| 87 |
+
<bio:aliquot>
|
| 88 |
+
<admin:additional_studies/>
|
| 89 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14E</bio:plate_id>
|
| 90 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 91 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 92 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 93 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 94 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14E-02</bio:bcr_aliquot_barcode>
|
| 95 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">aa6390ba-ac10-480e-888e-da7005c9af1b</bio:bcr_aliquot_uuid>
|
| 96 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 97 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 98 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 99 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 100 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 101 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476592</bio:biospecimen_barcode_bottom>
|
| 102 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 103 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 104 |
+
</bio:aliquot>
|
| 105 |
+
<bio:aliquot>
|
| 106 |
+
<admin:additional_studies/>
|
| 107 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14F</bio:plate_id>
|
| 108 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 109 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 110 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 111 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 112 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14F-01</bio:bcr_aliquot_barcode>
|
| 113 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">34a6f1be-b1db-4659-b620-6e21e0f73b2b</bio:bcr_aliquot_uuid>
|
| 114 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 115 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 116 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 117 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 118 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 119 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099028023</bio:biospecimen_barcode_bottom>
|
| 120 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 121 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 122 |
+
</bio:aliquot>
|
| 123 |
+
<bio:aliquot>
|
| 124 |
+
<admin:additional_studies/>
|
| 125 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14G</bio:plate_id>
|
| 126 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 127 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 128 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 129 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 130 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14G-09</bio:bcr_aliquot_barcode>
|
| 131 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7fcd5fda-8155-4b48-afb9-9e7958627113</bio:bcr_aliquot_uuid>
|
| 132 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 133 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 134 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
|
| 135 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 136 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 137 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476496</bio:biospecimen_barcode_bottom>
|
| 138 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 139 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 140 |
+
</bio:aliquot>
|
| 141 |
+
<bio:aliquot>
|
| 142 |
+
<admin:additional_studies/>
|
| 143 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14H</bio:plate_id>
|
| 144 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
|
| 145 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 146 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 147 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 148 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14H-05</bio:bcr_aliquot_barcode>
|
| 149 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">180ccad3-0279-4dea-a595-f154f85abea2</bio:bcr_aliquot_uuid>
|
| 150 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 151 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 152 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 153 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 154 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 155 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099039639</bio:biospecimen_barcode_bottom>
|
| 156 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 157 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 158 |
+
</bio:aliquot>
|
| 159 |
+
</bio:aliquots>
|
| 160 |
+
<bio:protocols>
|
| 161 |
+
<bio:protocol>
|
| 162 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
|
| 163 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 164 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 165 |
+
</bio:protocol>
|
| 166 |
+
</bio:protocols>
|
| 167 |
+
<bio:dna>
|
| 168 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 169 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 170 |
+
</bio:dna>
|
| 171 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 172 |
+
</bio:analyte>
|
| 173 |
+
<bio:analyte>
|
| 174 |
+
<admin:additional_studies/>
|
| 175 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 176 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
|
| 177 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
|
| 178 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 179 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.79</bio:a260_a280_ratio>
|
| 180 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 181 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 182 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R</bio:bcr_analyte_barcode>
|
| 183 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fabbaa0c-e741-4f04-b971-062a1f8dfe70</bio:bcr_analyte_uuid>
|
| 184 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 185 |
+
<bio:aliquots>
|
| 186 |
+
<bio:aliquot>
|
| 187 |
+
<admin:additional_studies/>
|
| 188 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14C</bio:plate_id>
|
| 189 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
|
| 190 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 191 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 192 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 193 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R-A14C-13</bio:bcr_aliquot_barcode>
|
| 194 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ecfbd0ba-1833-44a6-bda3-8d441212e10d</bio:bcr_aliquot_uuid>
|
| 195 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 196 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.00</bio:quantity>
|
| 197 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
|
| 198 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 199 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
|
| 200 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099029944</bio:biospecimen_barcode_bottom>
|
| 201 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 202 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 203 |
+
</bio:aliquot>
|
| 204 |
+
<bio:aliquot>
|
| 205 |
+
<admin:additional_studies/>
|
| 206 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14D</bio:plate_id>
|
| 207 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
|
| 208 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 209 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 210 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 211 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R-A14D-07</bio:bcr_aliquot_barcode>
|
| 212 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">53c8bbbd-16cd-4790-a99b-f45b0f958157</bio:bcr_aliquot_uuid>
|
| 213 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 214 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.01</bio:quantity>
|
| 215 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 216 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 217 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
|
| 218 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099029933</bio:biospecimen_barcode_bottom>
|
| 219 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 220 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 221 |
+
</bio:aliquot>
|
| 222 |
+
</bio:aliquots>
|
| 223 |
+
<bio:protocols>
|
| 224 |
+
<bio:protocol>
|
| 225 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">mirVana (Allprep DNA) RNA</bio:experimental_protocol_type>
|
| 226 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 227 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 228 |
+
</bio:protocol>
|
| 229 |
+
</bio:protocols>
|
| 230 |
+
<bio:rna>
|
| 231 |
+
<bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.90</bio:ratio_28s_18s>
|
| 232 |
+
<bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8.90</bio:rinvalue>
|
| 233 |
+
</bio:rna>
|
| 234 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 235 |
+
</bio:analyte>
|
| 236 |
+
<bio:analyte>
|
| 237 |
+
<admin:additional_studies/>
|
| 238 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 239 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 240 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 241 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 242 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 243 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 244 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 245 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11W</bio:bcr_analyte_barcode>
|
| 246 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7AAAE8C2-854B-4909-89CF-1D9299E06094</bio:bcr_analyte_uuid>
|
| 247 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 248 |
+
<bio:aliquots>
|
| 249 |
+
<bio:aliquot>
|
| 250 |
+
<admin:additional_studies/>
|
| 251 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16H</bio:plate_id>
|
| 252 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 253 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
|
| 254 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
|
| 255 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 256 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11W-A16H-09</bio:bcr_aliquot_barcode>
|
| 257 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a030f906-bc29-4230-af43-9aef58a3f539</bio:bcr_aliquot_uuid>
|
| 258 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 259 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 260 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 261 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 262 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 263 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113420304</bio:biospecimen_barcode_bottom>
|
| 264 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 265 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 266 |
+
</bio:aliquot>
|
| 267 |
+
</bio:aliquots>
|
| 268 |
+
<bio:protocols>
|
| 269 |
+
<bio:protocol>
|
| 270 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 271 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 272 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 273 |
+
</bio:protocol>
|
| 274 |
+
</bio:protocols>
|
| 275 |
+
<bio:dna>
|
| 276 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 277 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 278 |
+
</bio:dna>
|
| 279 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 280 |
+
</bio:analyte>
|
| 281 |
+
</bio:analytes>
|
| 282 |
+
<bio:slides>
|
| 283 |
+
<bio:slide>
|
| 284 |
+
<admin:additional_studies/>
|
| 285 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 286 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 287 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">60</bio:percent_tumor_cells>
|
| 288 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">60</bio:percent_tumor_nuclei>
|
| 289 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_normal_cells>
|
| 290 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
|
| 291 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_stromal_cells>
|
| 292 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 293 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_lymphocyte_infiltration>
|
| 294 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_monocyte_infiltration>
|
| 295 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 296 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_neutrophil_infiltration>
|
| 297 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 298 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-01-TSA</shared:bcr_slide_barcode>
|
| 299 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ba60c639-0f0b-4ccf-8990-d561c67794a8</shared:bcr_slide_uuid>
|
| 300 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-01-TSA.ba60c639-0f0b-4ccf-8990-d561c67794a8.svs</shared:image_file_name>
|
| 301 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 302 |
+
</bio:slide>
|
| 303 |
+
</bio:slides>
|
| 304 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 305 |
+
</bio:portion>
|
| 306 |
+
</bio:portions>
|
| 307 |
+
<bio:tumor_pathology/>
|
| 308 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 309 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 310 |
+
<shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 311 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">ACE20EC5-2822-4F50-949E-E194C59F0FCD</bio:pathology_report_uuid>
|
| 312 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU.ACE20EC5-2822-4F50-949E-E194C59F0FCD.pdf</bio:pathology_report_file_name>
|
| 313 |
+
<bio:diagnostic_slides>
|
| 314 |
+
<admin:additional_studies/>
|
| 315 |
+
<bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E2F24814-24BA-4158-8841-F27A8E100589</bio:ffpe_slide_uuid>
|
| 316 |
+
</bio:diagnostic_slides>
|
| 317 |
+
</bio:sample>
|
| 318 |
+
<bio:sample>
|
| 319 |
+
<admin:additional_studies/>
|
| 320 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:sample_type_id>
|
| 321 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
|
| 322 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 323 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Solid Tissue Normal</bio:sample_type>
|
| 324 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 325 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 326 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 327 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">340</bio:initial_weight>
|
| 328 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 329 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 330 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
|
| 331 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 332 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 333 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 334 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 335 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">136</bio:days_to_collection>
|
| 336 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 337 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 338 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A</bio:bcr_sample_barcode>
|
| 339 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c8e39abb-9027-4636-84b9-7bc03a8d4e49</bio:bcr_sample_uuid>
|
| 340 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 341 |
+
<bio:portions>
|
| 342 |
+
<bio:portion>
|
| 343 |
+
<admin:additional_studies/>
|
| 344 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">61</bio:portion_number>
|
| 345 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6</bio:portion_sequence>
|
| 346 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_creation>
|
| 347 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:month_of_creation>
|
| 348 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
|
| 349 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">210.00</bio:weight>
|
| 350 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61</bio:bcr_portion_barcode>
|
| 351 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">533c254b-0d13-45fb-b9b8-07b4324a45c6</bio:bcr_portion_uuid>
|
| 352 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 353 |
+
<bio:analytes>
|
| 354 |
+
<bio:analyte>
|
| 355 |
+
<admin:additional_studies/>
|
| 356 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 357 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 358 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 359 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 360 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.11</bio:a260_a280_ratio>
|
| 361 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 362 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 363 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D</bio:bcr_analyte_barcode>
|
| 364 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b60646e4-b524-4ad7-8cc5-359d598e40db</bio:bcr_analyte_uuid>
|
| 365 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 366 |
+
<bio:aliquots>
|
| 367 |
+
<bio:aliquot>
|
| 368 |
+
<admin:additional_studies/>
|
| 369 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14E</bio:plate_id>
|
| 370 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 371 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 372 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 373 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 374 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14E-02</bio:bcr_aliquot_barcode>
|
| 375 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">29649014-93dc-43a1-921b-7fef21993d35</bio:bcr_aliquot_uuid>
|
| 376 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 377 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.95</bio:quantity>
|
| 378 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 379 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 380 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
|
| 381 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476598</bio:biospecimen_barcode_bottom>
|
| 382 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 383 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 384 |
+
</bio:aliquot>
|
| 385 |
+
<bio:aliquot>
|
| 386 |
+
<admin:additional_studies/>
|
| 387 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14F</bio:plate_id>
|
| 388 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 389 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 390 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 391 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 392 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14F-01</bio:bcr_aliquot_barcode>
|
| 393 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4b2073cb-62fe-41f3-baa1-200fc865871b</bio:bcr_aliquot_uuid>
|
| 394 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 395 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.00</bio:quantity>
|
| 396 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 397 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 398 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
|
| 399 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099028029</bio:biospecimen_barcode_bottom>
|
| 400 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 401 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 402 |
+
</bio:aliquot>
|
| 403 |
+
<bio:aliquot>
|
| 404 |
+
<admin:additional_studies/>
|
| 405 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14G</bio:plate_id>
|
| 406 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 407 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
|
| 408 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 409 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 410 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14G-09</bio:bcr_aliquot_barcode>
|
| 411 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">48e5f4e0-7f51-47f6-a508-347ed3638a6d</bio:bcr_aliquot_uuid>
|
| 412 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 413 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 414 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
|
| 415 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 416 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
|
| 417 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476502</bio:biospecimen_barcode_bottom>
|
| 418 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 419 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 420 |
+
</bio:aliquot>
|
| 421 |
+
</bio:aliquots>
|
| 422 |
+
<bio:protocols>
|
| 423 |
+
<bio:protocol>
|
| 424 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
|
| 425 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 426 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 427 |
+
</bio:protocol>
|
| 428 |
+
</bio:protocols>
|
| 429 |
+
<bio:dna>
|
| 430 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 431 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 432 |
+
</bio:dna>
|
| 433 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 434 |
+
</bio:analyte>
|
| 435 |
+
<bio:analyte>
|
| 436 |
+
<admin:additional_studies/>
|
| 437 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 438 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 439 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 440 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 441 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 442 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 443 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 444 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61W</bio:bcr_analyte_barcode>
|
| 445 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">EEC40DEE-2D51-4990-809E-12F9EDC472C6</bio:bcr_analyte_uuid>
|
| 446 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 447 |
+
<bio:aliquots>
|
| 448 |
+
<bio:aliquot>
|
| 449 |
+
<admin:additional_studies/>
|
| 450 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16H</bio:plate_id>
|
| 451 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 452 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
|
| 453 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
|
| 454 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 455 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61W-A16H-09</bio:bcr_aliquot_barcode>
|
| 456 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3cfebe2f-269d-4b0b-926a-32e417edee64</bio:bcr_aliquot_uuid>
|
| 457 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 458 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 459 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 460 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
|
| 461 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
|
| 462 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113419347</bio:biospecimen_barcode_bottom>
|
| 463 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 464 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 465 |
+
</bio:aliquot>
|
| 466 |
+
</bio:aliquots>
|
| 467 |
+
<bio:protocols>
|
| 468 |
+
<bio:protocol>
|
| 469 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 470 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 471 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 472 |
+
</bio:protocol>
|
| 473 |
+
</bio:protocols>
|
| 474 |
+
<bio:dna>
|
| 475 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 476 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 477 |
+
</bio:dna>
|
| 478 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 479 |
+
</bio:analyte>
|
| 480 |
+
</bio:analytes>
|
| 481 |
+
<bio:slides>
|
| 482 |
+
<bio:slide>
|
| 483 |
+
<admin:additional_studies/>
|
| 484 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 485 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 486 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 487 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
|
| 488 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">90</bio:percent_normal_cells>
|
| 489 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
|
| 490 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
|
| 491 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 492 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">40</bio:percent_lymphocyte_infiltration>
|
| 493 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_monocyte_infiltration>
|
| 494 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 495 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">40</bio:percent_neutrophil_infiltration>
|
| 496 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 497 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-01-TSA</shared:bcr_slide_barcode>
|
| 498 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1c0aabbc-d315-4571-ada6-4d23b691441e</shared:bcr_slide_uuid>
|
| 499 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-01-TSA.1c0aabbc-d315-4571-ada6-4d23b691441e.svs</shared:image_file_name>
|
| 500 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 501 |
+
</bio:slide>
|
| 502 |
+
<bio:slide>
|
| 503 |
+
<admin:additional_studies/>
|
| 504 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 505 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 506 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 507 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
|
| 508 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
|
| 509 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">15</bio:percent_necrosis>
|
| 510 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">5</bio:percent_stromal_cells>
|
| 511 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 512 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
|
| 513 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
|
| 514 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 515 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
|
| 516 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 517 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-02-TSB</shared:bcr_slide_barcode>
|
| 518 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b1e1d4f0-7a97-4a67-a15f-667ba0454e31</shared:bcr_slide_uuid>
|
| 519 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-02-TSB.b1e1d4f0-7a97-4a67-a15f-667ba0454e31.svs</shared:image_file_name>
|
| 520 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 521 |
+
</bio:slide>
|
| 522 |
+
<bio:slide>
|
| 523 |
+
<admin:additional_studies/>
|
| 524 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 525 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 526 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 527 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
|
| 528 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
|
| 529 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
|
| 530 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
|
| 531 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 532 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
|
| 533 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
|
| 534 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 535 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
|
| 536 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 537 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-03-TSC</shared:bcr_slide_barcode>
|
| 538 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1e0a5cc1-d90d-4b19-9f96-93f67139fdb7</shared:bcr_slide_uuid>
|
| 539 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-03-TSC.1e0a5cc1-d90d-4b19-9f96-93f67139fdb7.svs</shared:image_file_name>
|
| 540 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 541 |
+
</bio:slide>
|
| 542 |
+
<bio:slide>
|
| 543 |
+
<admin:additional_studies/>
|
| 544 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 545 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 546 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 547 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
|
| 548 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
|
| 549 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
|
| 550 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
|
| 551 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 552 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
|
| 553 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
|
| 554 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 555 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
|
| 556 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 557 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-04-TSD</shared:bcr_slide_barcode>
|
| 558 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">e6f3112e-ffbb-40c6-be29-5cb1a4a20d94</shared:bcr_slide_uuid>
|
| 559 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-04-TSD.e6f3112e-ffbb-40c6-be29-5cb1a4a20d94.svs</shared:image_file_name>
|
| 560 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 561 |
+
</bio:slide>
|
| 562 |
+
<bio:slide>
|
| 563 |
+
<admin:additional_studies/>
|
| 564 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 565 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 566 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 567 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 568 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">100</bio:percent_normal_cells>
|
| 569 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 570 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 571 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 572 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_lymphocyte_infiltration>
|
| 573 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 574 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 575 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 576 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 577 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-05-TSE</shared:bcr_slide_barcode>
|
| 578 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3bc5b9f2-5fd3-4a00-a8f6-9cf98ab35113</shared:bcr_slide_uuid>
|
| 579 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-05-TSE.3bc5b9f2-5fd3-4a00-a8f6-9cf98ab35113.svs</shared:image_file_name>
|
| 580 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 581 |
+
</bio:slide>
|
| 582 |
+
<bio:slide>
|
| 583 |
+
<admin:additional_studies/>
|
| 584 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 585 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 586 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
|
| 587 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 588 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">100</bio:percent_normal_cells>
|
| 589 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 590 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 591 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 592 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_lymphocyte_infiltration>
|
| 593 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 594 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 595 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 596 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 597 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-06-TSF</shared:bcr_slide_barcode>
|
| 598 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">96609ca3-27d5-47b7-a3b2-9f658b24a26b</shared:bcr_slide_uuid>
|
| 599 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-06-TSF.96609ca3-27d5-47b7-a3b2-9f658b24a26b.svs</shared:image_file_name>
|
| 600 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 601 |
+
</bio:slide>
|
| 602 |
+
</bio:slides>
|
| 603 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 604 |
+
</bio:portion>
|
| 605 |
+
</bio:portions>
|
| 606 |
+
<bio:tumor_pathology/>
|
| 607 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 608 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 609 |
+
<shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 610 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
|
| 611 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 612 |
+
<bio:diagnostic_slides>
|
| 613 |
+
<admin:additional_studies/>
|
| 614 |
+
</bio:diagnostic_slides>
|
| 615 |
+
</bio:sample>
|
| 616 |
+
</bio:samples>
|
| 617 |
+
</bio:patient>
|
| 618 |
+
</bio:tcga_bcr>
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_33fbc3aa-c3f3-47b3-99dc-fd0f70422151_noid_Grn.idat
ADDED
|
@@ -0,0 +1,3 @@
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|
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|
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|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:c5f42be093b6d4d768857ae8c915f5b3b16ec303c4a580db7b702554789bd683
|
| 3 |
+
size 8091452
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_36125e17-48fd-4eea-874c-ed2e2e218402.rna_seq.augmented_star_gene_counts.tsv
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_4ebb1ec1-1b17-49f8-b5ca-79893b22049b.wgs.ASCAT.gene_level.copy_number_variation.tsv
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_4fbe4ee1-7efd-4ba4-8116-5ab3b4666b48.mirbase21.isoforms.quantification.txt
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_4fbe4ee1-7efd-4ba4-8116-5ab3b4666b48.mirbase21.mirnas.quantification.txt
ADDED
|
@@ -0,0 +1,1882 @@
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|
|
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|
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|
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|
|
|
|
| 1 |
+
miRNA_ID read_count reads_per_million_miRNA_mapped cross-mapped
|
| 2 |
+
hsa-let-7a-1 38052 16731.552070 N
|
| 3 |
+
hsa-let-7a-2 38123 16762.770934 Y
|
| 4 |
+
hsa-let-7a-3 38425 16895.561029 N
|
| 5 |
+
hsa-let-7b 211210 92869.523618 N
|
| 6 |
+
hsa-let-7c 24521 10781.940195 Y
|
| 7 |
+
hsa-let-7d 3190 1402.650350 N
|
| 8 |
+
hsa-let-7e 1396 613.824416 N
|
| 9 |
+
hsa-let-7f-1 6307 2773.202431 N
|
| 10 |
+
hsa-let-7f-2 6541 2876.092770 N
|
| 11 |
+
hsa-let-7g 2812 1236.442879 N
|
| 12 |
+
hsa-let-7i 3227 1418.919335 N
|
| 13 |
+
hsa-mir-1-1 0 0.000000 N
|
| 14 |
+
hsa-mir-1-2 3 1.319107 N
|
| 15 |
+
hsa-mir-100 8786 3863.224443 Y
|
| 16 |
+
hsa-mir-101-1 24263 10668.497001 N
|
| 17 |
+
hsa-mir-101-2 24368 10714.665743 N
|
| 18 |
+
hsa-mir-103a-1 10779 4739.551134 Y
|
| 19 |
+
hsa-mir-103a-2 10602 4661.723827 Y
|
| 20 |
+
hsa-mir-103b-1 0 0.000000 N
|
| 21 |
+
hsa-mir-103b-2 0 0.000000 N
|
| 22 |
+
hsa-mir-105-1 0 0.000000 N
|
| 23 |
+
hsa-mir-105-2 0 0.000000 N
|
| 24 |
+
hsa-mir-106a 82 36.055589 Y
|
| 25 |
+
hsa-mir-106b 2317 1018.790238 N
|
| 26 |
+
hsa-mir-107 144 63.317132 Y
|
| 27 |
+
hsa-mir-10a 38010 16713.084573 N
|
| 28 |
+
hsa-mir-10b 51989 22859.683080 N
|
| 29 |
+
hsa-mir-1178 0 0.000000 N
|
| 30 |
+
hsa-mir-1179 0 0.000000 N
|
| 31 |
+
hsa-mir-1180 14 6.155832 N
|
| 32 |
+
hsa-mir-1181 0 0.000000 N
|
| 33 |
+
hsa-mir-1182 0 0.000000 N
|
| 34 |
+
hsa-mir-1183 0 0.000000 N
|
| 35 |
+
hsa-mir-1184-1 0 0.000000 N
|
| 36 |
+
hsa-mir-1184-2 0 0.000000 N
|
| 37 |
+
hsa-mir-1184-3 0 0.000000 N
|
| 38 |
+
hsa-mir-1185-1 1 0.439702 N
|
| 39 |
+
hsa-mir-1185-2 0 0.000000 N
|
| 40 |
+
hsa-mir-1193 0 0.000000 N
|
| 41 |
+
hsa-mir-1197 0 0.000000 N
|
| 42 |
+
hsa-mir-1199 0 0.000000 N
|
| 43 |
+
hsa-mir-1200 0 0.000000 N
|
| 44 |
+
hsa-mir-1202 0 0.000000 N
|
| 45 |
+
hsa-mir-1203 0 0.000000 N
|
| 46 |
+
hsa-mir-1204 0 0.000000 N
|
| 47 |
+
hsa-mir-1205 0 0.000000 N
|
| 48 |
+
hsa-mir-1206 0 0.000000 N
|
| 49 |
+
hsa-mir-1207 0 0.000000 N
|
| 50 |
+
hsa-mir-1208 0 0.000000 N
|
| 51 |
+
hsa-mir-122 0 0.000000 N
|
| 52 |
+
hsa-mir-1224 0 0.000000 N
|
| 53 |
+
hsa-mir-1225 0 0.000000 N
|
| 54 |
+
hsa-mir-1226 7 3.077916 N
|
| 55 |
+
hsa-mir-1227 0 0.000000 N
|
| 56 |
+
hsa-mir-1228 3 1.319107 N
|
| 57 |
+
hsa-mir-1229 2 0.879405 N
|
| 58 |
+
hsa-mir-1231 0 0.000000 N
|
| 59 |
+
hsa-mir-1233-1 0 0.000000 N
|
| 60 |
+
hsa-mir-1233-2 0 0.000000 N
|
| 61 |
+
hsa-mir-1234 1 0.439702 N
|
| 62 |
+
hsa-mir-1236 0 0.000000 N
|
| 63 |
+
hsa-mir-1237 0 0.000000 N
|
| 64 |
+
hsa-mir-1238 0 0.000000 N
|
| 65 |
+
hsa-mir-124-1 0 0.000000 N
|
| 66 |
+
hsa-mir-124-2 0 0.000000 N
|
| 67 |
+
hsa-mir-124-3 0 0.000000 N
|
| 68 |
+
hsa-mir-1243 0 0.000000 N
|
| 69 |
+
hsa-mir-1244-1 0 0.000000 N
|
| 70 |
+
hsa-mir-1244-2 0 0.000000 N
|
| 71 |
+
hsa-mir-1244-3 0 0.000000 N
|
| 72 |
+
hsa-mir-1244-4 0 0.000000 N
|
| 73 |
+
hsa-mir-1245a 5 2.198512 N
|
| 74 |
+
hsa-mir-1245b 0 0.000000 N
|
| 75 |
+
hsa-mir-1246 0 0.000000 N
|
| 76 |
+
hsa-mir-1247 82 36.055589 N
|
| 77 |
+
hsa-mir-1248 2 0.879405 N
|
| 78 |
+
hsa-mir-1249 7 3.077916 N
|
| 79 |
+
hsa-mir-1250 0 0.000000 N
|
| 80 |
+
hsa-mir-1251 1 0.439702 N
|
| 81 |
+
hsa-mir-1252 1 0.439702 N
|
| 82 |
+
hsa-mir-1253 0 0.000000 N
|
| 83 |
+
hsa-mir-1254-1 0 0.000000 N
|
| 84 |
+
hsa-mir-1254-2 2 0.879405 N
|
| 85 |
+
hsa-mir-1255a 3 1.319107 N
|
| 86 |
+
hsa-mir-1255b-1 0 0.000000 N
|
| 87 |
+
hsa-mir-1255b-2 0 0.000000 N
|
| 88 |
+
hsa-mir-1256 0 0.000000 N
|
| 89 |
+
hsa-mir-1257 0 0.000000 N
|
| 90 |
+
hsa-mir-1258 0 0.000000 N
|
| 91 |
+
hsa-mir-125a 6518 2865.979617 N
|
| 92 |
+
hsa-mir-125b-1 5378 2364.718991 N
|
| 93 |
+
hsa-mir-125b-2 5407 2377.470357 N
|
| 94 |
+
hsa-mir-126 4244 1866.096578 N
|
| 95 |
+
hsa-mir-1260a 0 0.000000 N
|
| 96 |
+
hsa-mir-1260b 0 0.000000 N
|
| 97 |
+
hsa-mir-1261 0 0.000000 N
|
| 98 |
+
hsa-mir-1262 2 0.879405 N
|
| 99 |
+
hsa-mir-1263 0 0.000000 N
|
| 100 |
+
hsa-mir-1264 0 0.000000 N
|
| 101 |
+
hsa-mir-1265 0 0.000000 N
|
| 102 |
+
hsa-mir-1266 15 6.595535 N
|
| 103 |
+
hsa-mir-1267 0 0.000000 N
|
| 104 |
+
hsa-mir-1268a 0 0.000000 N
|
| 105 |
+
hsa-mir-1268b 0 0.000000 N
|
| 106 |
+
hsa-mir-1269a 3 1.319107 N
|
| 107 |
+
hsa-mir-1269b 0 0.000000 N
|
| 108 |
+
hsa-mir-127 8005 3519.816943 N
|
| 109 |
+
hsa-mir-1270 15 6.595535 N
|
| 110 |
+
hsa-mir-1271 98 43.090826 N
|
| 111 |
+
hsa-mir-1272 0 0.000000 N
|
| 112 |
+
hsa-mir-1273a 0 0.000000 N
|
| 113 |
+
hsa-mir-1273c 0 0.000000 N
|
| 114 |
+
hsa-mir-1273d 0 0.000000 N
|
| 115 |
+
hsa-mir-1273e 0 0.000000 N
|
| 116 |
+
hsa-mir-1273f 0 0.000000 N
|
| 117 |
+
hsa-mir-1273g 0 0.000000 N
|
| 118 |
+
hsa-mir-1273h 0 0.000000 N
|
| 119 |
+
hsa-mir-1275 5 2.198512 N
|
| 120 |
+
hsa-mir-1276 1 0.439702 N
|
| 121 |
+
hsa-mir-1277 8 3.517618 N
|
| 122 |
+
hsa-mir-1278 1 0.439702 N
|
| 123 |
+
hsa-mir-1279 0 0.000000 N
|
| 124 |
+
hsa-mir-128-1 188 82.664033 N
|
| 125 |
+
hsa-mir-128-2 119 52.324574 N
|
| 126 |
+
hsa-mir-1281 0 0.000000 N
|
| 127 |
+
hsa-mir-1282 0 0.000000 N
|
| 128 |
+
hsa-mir-1283-1 0 0.000000 N
|
| 129 |
+
hsa-mir-1283-2 0 0.000000 N
|
| 130 |
+
hsa-mir-1284 4 1.758809 N
|
| 131 |
+
hsa-mir-1285-1 0 0.000000 N
|
| 132 |
+
hsa-mir-1285-2 0 0.000000 N
|
| 133 |
+
hsa-mir-1286 0 0.000000 N
|
| 134 |
+
hsa-mir-1287 244 107.287362 N
|
| 135 |
+
hsa-mir-1288 0 0.000000 N
|
| 136 |
+
hsa-mir-1289-1 0 0.000000 N
|
| 137 |
+
hsa-mir-1289-2 0 0.000000 N
|
| 138 |
+
hsa-mir-129-1 1 0.439702 N
|
| 139 |
+
hsa-mir-129-2 1 0.439702 N
|
| 140 |
+
hsa-mir-1290 0 0.000000 N
|
| 141 |
+
hsa-mir-1291 1 0.439702 N
|
| 142 |
+
hsa-mir-1292 1 0.439702 N
|
| 143 |
+
hsa-mir-1293 0 0.000000 N
|
| 144 |
+
hsa-mir-1294 0 0.000000 N
|
| 145 |
+
hsa-mir-1295a 3 1.319107 N
|
| 146 |
+
hsa-mir-1295b 0 0.000000 N
|
| 147 |
+
hsa-mir-1296 58 25.502734 N
|
| 148 |
+
hsa-mir-1297 0 0.000000 N
|
| 149 |
+
hsa-mir-1298 0 0.000000 N
|
| 150 |
+
hsa-mir-1299 0 0.000000 N
|
| 151 |
+
hsa-mir-1301 17 7.474939 N
|
| 152 |
+
hsa-mir-1302-1 0 0.000000 N
|
| 153 |
+
hsa-mir-1302-10 0 0.000000 N
|
| 154 |
+
hsa-mir-1302-11 0 0.000000 N
|
| 155 |
+
hsa-mir-1302-2 0 0.000000 N
|
| 156 |
+
hsa-mir-1302-3 0 0.000000 N
|
| 157 |
+
hsa-mir-1302-4 0 0.000000 N
|
| 158 |
+
hsa-mir-1302-5 0 0.000000 N
|
| 159 |
+
hsa-mir-1302-6 0 0.000000 N
|
| 160 |
+
hsa-mir-1302-7 0 0.000000 N
|
| 161 |
+
hsa-mir-1302-8 0 0.000000 N
|
| 162 |
+
hsa-mir-1302-9 0 0.000000 N
|
| 163 |
+
hsa-mir-1303 0 0.000000 N
|
| 164 |
+
hsa-mir-1304 2 0.879405 N
|
| 165 |
+
hsa-mir-1305 0 0.000000 N
|
| 166 |
+
hsa-mir-1306 62 27.261543 N
|
| 167 |
+
hsa-mir-1307 3589 1578.091569 N
|
| 168 |
+
hsa-mir-130a 1352 594.477515 N
|
| 169 |
+
hsa-mir-130b 159 69.912666 N
|
| 170 |
+
hsa-mir-132 402 176.760326 N
|
| 171 |
+
hsa-mir-1321 0 0.000000 N
|
| 172 |
+
hsa-mir-1322 0 0.000000 N
|
| 173 |
+
hsa-mir-1323 0 0.000000 N
|
| 174 |
+
hsa-mir-1324 0 0.000000 N
|
| 175 |
+
hsa-mir-133a-1 2 0.879405 N
|
| 176 |
+
hsa-mir-133a-2 1 0.439702 N
|
| 177 |
+
hsa-mir-133b 0 0.000000 N
|
| 178 |
+
hsa-mir-134 3408 1498.505452 N
|
| 179 |
+
hsa-mir-1343 4 1.758809 N
|
| 180 |
+
hsa-mir-135a-1 6 2.638214 N
|
| 181 |
+
hsa-mir-135a-2 7 3.077916 N
|
| 182 |
+
hsa-mir-135b 317 139.385630 N
|
| 183 |
+
hsa-mir-136 837 368.030828 N
|
| 184 |
+
hsa-mir-137 0 0.000000 N
|
| 185 |
+
hsa-mir-138-1 0 0.000000 N
|
| 186 |
+
hsa-mir-138-2 0 0.000000 N
|
| 187 |
+
hsa-mir-139 88 38.693803 N
|
| 188 |
+
hsa-mir-140 2710 1191.593244 N
|
| 189 |
+
hsa-mir-141 5701 2506.742835 N
|
| 190 |
+
hsa-mir-142 1958 860.937111 N
|
| 191 |
+
hsa-mir-143 126501 55622.781152 N
|
| 192 |
+
hsa-mir-144 159 69.912666 N
|
| 193 |
+
hsa-mir-145 12300 5408.338339 N
|
| 194 |
+
hsa-mir-1468 34 14.949878 N
|
| 195 |
+
hsa-mir-1469 0 0.000000 N
|
| 196 |
+
hsa-mir-146a 2160 949.756977 N
|
| 197 |
+
hsa-mir-146b 865 380.342493 N
|
| 198 |
+
hsa-mir-1470 0 0.000000 N
|
| 199 |
+
hsa-mir-1471 0 0.000000 N
|
| 200 |
+
hsa-mir-147a 0 0.000000 N
|
| 201 |
+
hsa-mir-147b 1 0.439702 N
|
| 202 |
+
hsa-mir-148a 300043 131929.598385 N
|
| 203 |
+
hsa-mir-148b 767 337.251667 N
|
| 204 |
+
hsa-mir-149 70 30.779161 N
|
| 205 |
+
hsa-mir-150 344 151.257593 N
|
| 206 |
+
hsa-mir-151a 4166 1831.799798 N
|
| 207 |
+
hsa-mir-151b 28 12.311665 N
|
| 208 |
+
hsa-mir-152 1348 592.718706 N
|
| 209 |
+
hsa-mir-153-1 0 0.000000 N
|
| 210 |
+
hsa-mir-153-2 12 5.276428 N
|
| 211 |
+
hsa-mir-1537 2 0.879405 N
|
| 212 |
+
hsa-mir-1538 2 0.879405 N
|
| 213 |
+
hsa-mir-1539 1 0.439702 N
|
| 214 |
+
hsa-mir-154 76 33.417375 N
|
| 215 |
+
hsa-mir-155 258 113.443194 N
|
| 216 |
+
hsa-mir-1587 0 0.000000 N
|
| 217 |
+
hsa-mir-15a 210 92.337484 N
|
| 218 |
+
hsa-mir-15b 409 179.838242 N
|
| 219 |
+
hsa-mir-16-1 975 428.709746 N
|
| 220 |
+
hsa-mir-16-2 980 430.908258 N
|
| 221 |
+
hsa-mir-17 2894 1272.498468 Y
|
| 222 |
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hsa-mir-181a-1 7831 3443.308742 N
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| 223 |
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hsa-mir-181a-2 22667 9966.732124 N
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| 224 |
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hsa-mir-181b-1 1937 851.703363 N
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| 225 |
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hsa-mir-181b-2 1937 851.703363 N
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| 226 |
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hsa-mir-181c 945 415.518677 N
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| 227 |
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hsa-mir-181d 174 76.508201 N
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| 228 |
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hsa-mir-182 70871 31162.141983 N
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| 229 |
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hsa-mir-1825 0 0.000000 N
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hsa-mir-1827 0 0.000000 N
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| 231 |
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hsa-mir-183 18835 8281.792895 N
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hsa-mir-184 0 0.000000 N
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| 233 |
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hsa-mir-185 36 15.829283 N
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| 234 |
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hsa-mir-186 1373 603.711263 N
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| 235 |
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hsa-mir-187 293 128.832775 N
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| 236 |
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hsa-mir-188 18 7.914641 N
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| 237 |
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hsa-mir-18a 27 11.871962 Y
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| 238 |
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hsa-mir-18b 5 2.198512 Y
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hsa-mir-190a 35 15.389581 N
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hsa-mir-190b 2 0.879405 N
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| 243 |
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hsa-mir-191 3867 1700.328809 N
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| 244 |
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hsa-mir-1910 1 0.439702 N
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hsa-mir-1912 0 0.000000 N
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hsa-mir-1913 0 0.000000 N
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| 250 |
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hsa-mir-192 2885 1268.541147 Y
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| 252 |
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hsa-mir-193b 199 87.500758 N
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| 253 |
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hsa-mir-194-1 302 132.790096 N
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| 254 |
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| 255 |
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hsa-mir-195 394 173.242708 N
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| 256 |
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| 257 |
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| 258 |
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| 259 |
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hsa-mir-197 1179 518.409016 N
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hsa-mir-1976 13 5.716130 N
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hsa-mir-198 0 0.000000 N
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hsa-mir-199a-1 12230 5377.559177 Y
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hsa-mir-199a-2 21819 9593.864570 Y
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| 267 |
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hsa-mir-199b 28858 12688.929087 Y
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| 268 |
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| 269 |
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| 270 |
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hsa-mir-19b-2 418 183.795563 N
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| 271 |
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hsa-mir-200a 3689 1622.061799 N
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| 272 |
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hsa-mir-200b 2277 1001.202146 N
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| 273 |
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hsa-mir-200c 26556 11676.734384 N
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| 274 |
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hsa-mir-202 2 0.879405 N
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hsa-mir-203a 25457 11193.501552 N
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| 276 |
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hsa-mir-203b 179 78.706712 N
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hsa-mir-204 53 23.304222 N
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hsa-mir-205 44386 19516.626463 N
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| 285 |
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hsa-mir-20a 810 356.158866 N
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| 286 |
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hsa-mir-20b 88 38.693803 N
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| 287 |
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hsa-mir-21 145853 64131.900138 N
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| 288 |
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hsa-mir-210 1251 550.067582 N
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hsa-mir-212 12 5.276428 N
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| 297 |
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hsa-mir-214 155 68.153857 N
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| 298 |
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hsa-mir-215 29 12.751367 Y
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hsa-mir-216a 4 1.758809 N
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hsa-mir-217 32 14.070474 N
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hsa-mir-219b 1 0.439702 N
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hsa-mir-22 99928 43938.571829 N
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hsa-mir-221 549 241.396565 N
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hsa-mir-223 101 44.409933 N
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hsa-mir-2277 17 7.474939 N
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hsa-mir-2355 154 67.714155 N
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hsa-mir-2392 0 0.000000 N
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hsa-mir-23a 6574 2890.602946 Y
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| 318 |
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hsa-mir-23b 12053 5299.731870 Y
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| 319 |
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hsa-mir-23c 1 0.439702 N
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| 320 |
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hsa-mir-25 30408 13370.467659 N
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| 327 |
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| 328 |
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hsa-mir-26b 3068 1349.006669 N
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| 329 |
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| 330 |
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hsa-mir-27b 6088 2676.907626 Y
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hsa-mir-28 15092 6635.987171 N
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hsa-mir-296 85 37.374696 N
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hsa-mir-299 28 12.311665 N
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| 338 |
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hsa-mir-29a 15626 6870.788202 N
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| 339 |
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| 340 |
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| 342 |
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hsa-mir-3065 236 103.769744 N
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hsa-mir-3074 53 23.304222 N
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hsa-mir-30a 139643 61401.348831 Y
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hsa-mir-342 498 218.971747 N
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hsa-mir-3607 1096 481.913725 N
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hsa-mir-361 884 388.696837 N
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hsa-mir-363 25 10.992558 N
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hsa-mir-3650 1 0.439702 N
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hsa-mir-3651 2 0.879405 N
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hsa-mir-3652 3 1.319107 N
|
| 533 |
+
hsa-mir-3653 37 16.268985 N
|
| 534 |
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hsa-mir-3654 3 1.319107 N
|
| 535 |
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hsa-mir-3655 2 0.879405 N
|
| 536 |
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hsa-mir-3656 0 0.000000 N
|
| 537 |
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hsa-mir-3657 0 0.000000 N
|
| 538 |
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hsa-mir-3658 0 0.000000 N
|
| 539 |
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hsa-mir-3659 0 0.000000 N
|
| 540 |
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hsa-mir-365a 170 74.749392 Y
|
| 541 |
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hsa-mir-365b 164 72.111178 Y
|
| 542 |
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hsa-mir-3660 0 0.000000 N
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| 543 |
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hsa-mir-3661 0 0.000000 N
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| 544 |
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hsa-mir-3662 0 0.000000 N
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| 545 |
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hsa-mir-3663 0 0.000000 N
|
| 546 |
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hsa-mir-3664 17 7.474939 N
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| 547 |
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hsa-mir-3665 0 0.000000 N
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| 548 |
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hsa-mir-3666 0 0.000000 N
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| 549 |
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hsa-mir-3667 0 0.000000 N
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| 550 |
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hsa-mir-3668 0 0.000000 N
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| 551 |
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hsa-mir-367 0 0.000000 N
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| 552 |
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hsa-mir-3670-1 0 0.000000 N
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| 553 |
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hsa-mir-3670-2 0 0.000000 N
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| 554 |
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hsa-mir-3670-3 0 0.000000 N
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| 555 |
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hsa-mir-3670-4 0 0.000000 N
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| 556 |
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hsa-mir-3671 0 0.000000 N
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| 557 |
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hsa-mir-3672 0 0.000000 N
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| 558 |
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hsa-mir-3674 0 0.000000 N
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| 559 |
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hsa-mir-3675 0 0.000000 N
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| 560 |
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hsa-mir-3677 4 1.758809 N
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| 561 |
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hsa-mir-3678 2 0.879405 N
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| 562 |
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hsa-mir-3679 0 0.000000 N
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| 563 |
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hsa-mir-3680-1 0 0.000000 N
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| 564 |
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hsa-mir-3680-2 0 0.000000 N
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| 565 |
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hsa-mir-3681 0 0.000000 N
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| 566 |
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hsa-mir-3682 2 0.879405 N
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| 567 |
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hsa-mir-3683 0 0.000000 N
|
| 568 |
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hsa-mir-3684 2 0.879405 N
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| 569 |
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hsa-mir-3685 0 0.000000 N
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| 570 |
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hsa-mir-3686 0 0.000000 N
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| 571 |
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hsa-mir-3687-1 0 0.000000 N
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| 572 |
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hsa-mir-3687-2 0 0.000000 N
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| 573 |
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hsa-mir-3688-1 0 0.000000 N
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| 574 |
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hsa-mir-3688-2 0 0.000000 N
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| 575 |
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hsa-mir-3689a 0 0.000000 N
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| 576 |
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hsa-mir-3689b 0 0.000000 N
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| 577 |
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hsa-mir-3689c 0 0.000000 N
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| 578 |
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hsa-mir-3689d-1 0 0.000000 N
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| 579 |
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hsa-mir-3689d-2 0 0.000000 N
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| 580 |
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hsa-mir-3689e 0 0.000000 N
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| 581 |
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hsa-mir-3689f 0 0.000000 N
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| 582 |
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hsa-mir-369 73 32.098268 N
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| 583 |
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hsa-mir-3690-1 0 0.000000 N
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| 584 |
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hsa-mir-3690-2 0 0.000000 N
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| 585 |
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hsa-mir-3691 0 0.000000 N
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| 586 |
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hsa-mir-3692 0 0.000000 N
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| 587 |
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hsa-mir-370 98 43.090826 N
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| 588 |
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hsa-mir-3713 0 0.000000 N
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| 589 |
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hsa-mir-3714 0 0.000000 N
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| 590 |
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hsa-mir-371a 0 0.000000 N
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| 591 |
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hsa-mir-371b 0 0.000000 N
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| 592 |
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hsa-mir-372 1 0.439702 N
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| 593 |
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hsa-mir-373 0 0.000000 N
|
| 594 |
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hsa-mir-374a 2576 1132.673135 N
|
| 595 |
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hsa-mir-374b 297 130.591584 Y
|
| 596 |
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hsa-mir-374c 3 1.319107 Y
|
| 597 |
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hsa-mir-375 7501 3298.206982 N
|
| 598 |
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hsa-mir-376a-1 20 8.794046 N
|
| 599 |
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hsa-mir-376a-2 7 3.077916 N
|
| 600 |
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hsa-mir-376b 15 6.595535 Y
|
| 601 |
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hsa-mir-376c 53 23.304222 Y
|
| 602 |
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hsa-mir-377 30 13.191069 N
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| 603 |
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hsa-mir-378a 737 324.060598 N
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| 604 |
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hsa-mir-378b 0 0.000000 N
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| 605 |
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hsa-mir-378c 21 9.233748 N
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| 606 |
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hsa-mir-378d-1 0 0.000000 N
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| 607 |
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hsa-mir-378d-2 0 0.000000 N
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| 608 |
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hsa-mir-378e 0 0.000000 N
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| 609 |
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hsa-mir-378f 0 0.000000 N
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| 610 |
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hsa-mir-378g 0 0.000000 N
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| 611 |
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hsa-mir-378h 0 0.000000 N
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| 612 |
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hsa-mir-378i 0 0.000000 N
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| 613 |
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hsa-mir-378j 0 0.000000 N
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| 614 |
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hsa-mir-379 3545 1558.744668 N
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| 615 |
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hsa-mir-380 5 2.198512 N
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| 616 |
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hsa-mir-381 80 35.176184 N
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| 617 |
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hsa-mir-382 125 54.962788 N
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| 618 |
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hsa-mir-383 1 0.439702 N
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| 619 |
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hsa-mir-384 0 0.000000 N
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| 620 |
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hsa-mir-3907 0 0.000000 N
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| 621 |
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hsa-mir-3908 0 0.000000 N
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| 622 |
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hsa-mir-3909 0 0.000000 N
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| 623 |
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hsa-mir-3910-1 0 0.000000 N
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| 624 |
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hsa-mir-3910-2 0 0.000000 N
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| 625 |
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hsa-mir-3911 1 0.439702 N
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| 626 |
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hsa-mir-3912 2 0.879405 N
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| 627 |
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hsa-mir-3913-1 5 2.198512 N
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| 628 |
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hsa-mir-3913-2 9 3.957321 N
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| 629 |
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hsa-mir-3914-1 0 0.000000 N
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| 630 |
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hsa-mir-3914-2 0 0.000000 N
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| 631 |
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hsa-mir-3915 0 0.000000 N
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| 632 |
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hsa-mir-3916 0 0.000000 N
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| 633 |
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hsa-mir-3917 6 2.638214 N
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| 634 |
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hsa-mir-3918 0 0.000000 N
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| 635 |
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hsa-mir-3919 0 0.000000 N
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| 636 |
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hsa-mir-3920 0 0.000000 N
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| 637 |
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hsa-mir-3921 0 0.000000 N
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| 638 |
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hsa-mir-3922 1 0.439702 N
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| 639 |
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hsa-mir-3923 0 0.000000 N
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| 640 |
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hsa-mir-3924 0 0.000000 N
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| 641 |
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hsa-mir-3925 0 0.000000 N
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| 642 |
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hsa-mir-3926-1 2 0.879405 N
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| 643 |
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hsa-mir-3926-2 5 2.198512 N
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| 644 |
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hsa-mir-3927 4 1.758809 N
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| 645 |
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hsa-mir-3928 14 6.155832 N
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| 646 |
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hsa-mir-3929 0 0.000000 N
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| 647 |
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hsa-mir-3934 2 0.879405 N
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| 648 |
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hsa-mir-3935 0 0.000000 N
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| 649 |
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hsa-mir-3936 0 0.000000 N
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| 650 |
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hsa-mir-3937 0 0.000000 N
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| 651 |
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hsa-mir-3938 0 0.000000 N
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| 652 |
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hsa-mir-3939 0 0.000000 N
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| 653 |
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hsa-mir-3940 6 2.638214 N
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| 654 |
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hsa-mir-3941 1 0.439702 N
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| 655 |
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hsa-mir-3942 0 0.000000 N
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| 656 |
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hsa-mir-3943 0 0.000000 N
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| 657 |
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hsa-mir-3944 2 0.879405 N
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| 658 |
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hsa-mir-3945 0 0.000000 N
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| 659 |
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hsa-mir-3960 0 0.000000 N
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| 660 |
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hsa-mir-3972 0 0.000000 N
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| 661 |
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hsa-mir-3973 0 0.000000 N
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| 662 |
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hsa-mir-3974 0 0.000000 N
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| 663 |
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hsa-mir-3975 0 0.000000 N
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| 664 |
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hsa-mir-3976 0 0.000000 N
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| 665 |
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hsa-mir-3977 0 0.000000 N
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| 666 |
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hsa-mir-3978 0 0.000000 N
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| 667 |
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hsa-mir-409 264 116.081408 N
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| 668 |
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hsa-mir-410 69 30.339459 N
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| 669 |
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hsa-mir-411 51 22.424818 N
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| 670 |
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hsa-mir-412 49 21.545413 N
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| 671 |
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hsa-mir-421 3 1.319107 N
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| 672 |
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hsa-mir-422a 0 0.000000 N
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| 673 |
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hsa-mir-423 668 293.721139 N
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| 674 |
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hsa-mir-424 205 90.138972 N
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| 675 |
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hsa-mir-425 438 192.589609 N
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| 676 |
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hsa-mir-4251 0 0.000000 N
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| 677 |
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hsa-mir-4252 0 0.000000 N
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| 678 |
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hsa-mir-4253 0 0.000000 N
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| 679 |
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hsa-mir-4254 0 0.000000 N
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| 680 |
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hsa-mir-4255 0 0.000000 N
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| 681 |
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hsa-mir-4256 0 0.000000 N
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| 682 |
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hsa-mir-4257 0 0.000000 N
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| 683 |
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hsa-mir-4258 0 0.000000 N
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| 684 |
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hsa-mir-4259 0 0.000000 N
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| 685 |
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hsa-mir-4260 0 0.000000 N
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| 686 |
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hsa-mir-4261 0 0.000000 N
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| 687 |
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hsa-mir-4262 0 0.000000 N
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| 688 |
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hsa-mir-4263 0 0.000000 N
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| 689 |
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hsa-mir-4264 0 0.000000 N
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| 690 |
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hsa-mir-4265 0 0.000000 N
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| 691 |
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hsa-mir-4266 0 0.000000 N
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| 692 |
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hsa-mir-4267 0 0.000000 N
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| 693 |
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hsa-mir-4268 0 0.000000 N
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| 694 |
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hsa-mir-4269 0 0.000000 N
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hsa-mir-4270 0 0.000000 N
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hsa-mir-4271 0 0.000000 N
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| 697 |
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hsa-mir-4272 0 0.000000 N
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| 698 |
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hsa-mir-4273 0 0.000000 N
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| 699 |
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hsa-mir-4274 0 0.000000 N
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| 700 |
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hsa-mir-4275 0 0.000000 N
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| 701 |
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hsa-mir-4276 0 0.000000 N
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| 702 |
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hsa-mir-4277 0 0.000000 N
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| 703 |
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hsa-mir-4278 0 0.000000 N
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| 704 |
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hsa-mir-4279 0 0.000000 N
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| 705 |
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hsa-mir-4280 0 0.000000 N
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| 706 |
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hsa-mir-4281 0 0.000000 N
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hsa-mir-4282 0 0.000000 N
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| 708 |
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hsa-mir-4283-1 0 0.000000 N
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| 709 |
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hsa-mir-4283-2 0 0.000000 N
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| 710 |
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hsa-mir-4284 0 0.000000 N
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| 711 |
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| 712 |
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hsa-mir-4286 0 0.000000 N
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| 714 |
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hsa-mir-4288 0 0.000000 N
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| 715 |
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hsa-mir-4289 0 0.000000 N
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| 716 |
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hsa-mir-429 476 209.298297 N
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| 717 |
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| 718 |
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| 719 |
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hsa-mir-4292 0 0.000000 N
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hsa-mir-4293 0 0.000000 N
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| 721 |
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hsa-mir-4294 0 0.000000 N
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| 722 |
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hsa-mir-4295 0 0.000000 N
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| 723 |
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| 724 |
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hsa-mir-4297 0 0.000000 N
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| 725 |
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hsa-mir-4298 0 0.000000 N
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hsa-mir-4299 0 0.000000 N
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| 727 |
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hsa-mir-4300 0 0.000000 N
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| 728 |
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hsa-mir-4301 0 0.000000 N
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| 729 |
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hsa-mir-4302 0 0.000000 N
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| 730 |
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hsa-mir-4303 0 0.000000 N
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| 731 |
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hsa-mir-4304 0 0.000000 N
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| 732 |
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| 733 |
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hsa-mir-4306 0 0.000000 N
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| 734 |
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| 735 |
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| 736 |
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hsa-mir-4309 0 0.000000 N
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| 737 |
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hsa-mir-431 102 44.849635 N
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| 738 |
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| 739 |
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| 740 |
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hsa-mir-4313 0 0.000000 N
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hsa-mir-4314 0 0.000000 N
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hsa-mir-4315-1 0 0.000000 N
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hsa-mir-4315-2 0 0.000000 N
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hsa-mir-4317 0 0.000000 N
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| 747 |
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hsa-mir-4318 0 0.000000 N
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| 748 |
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| 749 |
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hsa-mir-432 44 19.346901 N
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| 750 |
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| 751 |
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hsa-mir-4322 0 0.000000 N
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| 759 |
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| 760 |
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hsa-mir-433 16 7.035237 N
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| 761 |
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| 762 |
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| 763 |
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| 764 |
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| 765 |
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| 766 |
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| 767 |
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hsa-mir-4421 0 0.000000 N
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| 768 |
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hsa-mir-4422 0 0.000000 N
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| 769 |
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hsa-mir-4423 1 0.439702 N
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| 770 |
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| 771 |
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hsa-mir-4425 0 0.000000 N
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| 772 |
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| 773 |
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| 775 |
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| 776 |
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hsa-mir-4430 0 0.000000 N
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| 777 |
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| 778 |
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| 779 |
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| 780 |
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hsa-mir-4433b 0 0.000000 N
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| 781 |
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hsa-mir-4434 0 0.000000 N
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| 782 |
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hsa-mir-4435-1 0 0.000000 N
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| 783 |
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hsa-mir-4435-2 0 0.000000 N
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| 784 |
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hsa-mir-4436a 0 0.000000 N
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| 785 |
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hsa-mir-4436b-1 0 0.000000 N
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| 786 |
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hsa-mir-4436b-2 0 0.000000 N
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| 787 |
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| 788 |
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| 789 |
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hsa-mir-4439 0 0.000000 N
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| 790 |
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hsa-mir-4440 0 0.000000 N
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| 791 |
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hsa-mir-4441 0 0.000000 N
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| 792 |
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hsa-mir-4442 1 0.439702 N
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| 793 |
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hsa-mir-4443 0 0.000000 N
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| 794 |
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hsa-mir-4444-1 0 0.000000 N
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| 795 |
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hsa-mir-4444-2 3 1.319107 N
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| 796 |
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hsa-mir-4445 0 0.000000 N
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| 797 |
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| 798 |
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| 799 |
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hsa-mir-4448 0 0.000000 N
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| 800 |
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hsa-mir-4449 2 0.879405 N
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| 801 |
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hsa-mir-4450 0 0.000000 N
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| 802 |
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hsa-mir-4451 0 0.000000 N
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| 803 |
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hsa-mir-4452 0 0.000000 N
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hsa-mir-4453 0 0.000000 N
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hsa-mir-4454 0 0.000000 N
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hsa-mir-4455 0 0.000000 N
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hsa-mir-4456 0 0.000000 N
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hsa-mir-4457 0 0.000000 N
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hsa-mir-4458 0 0.000000 N
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| 810 |
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hsa-mir-4459 0 0.000000 N
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| 811 |
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hsa-mir-4460 0 0.000000 N
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| 812 |
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hsa-mir-4461 1 0.439702 N
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| 813 |
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hsa-mir-4462 0 0.000000 N
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| 814 |
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hsa-mir-4463 0 0.000000 N
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| 815 |
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hsa-mir-4464 0 0.000000 N
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| 816 |
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hsa-mir-4465 1 0.439702 N
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| 817 |
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hsa-mir-4466 0 0.000000 N
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| 818 |
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hsa-mir-4467 0 0.000000 N
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| 819 |
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hsa-mir-4468 0 0.000000 N
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| 820 |
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hsa-mir-4469 1 0.439702 N
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| 821 |
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hsa-mir-4470 0 0.000000 N
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| 822 |
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hsa-mir-4471 0 0.000000 N
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| 823 |
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hsa-mir-4472-1 0 0.000000 N
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| 824 |
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hsa-mir-4472-2 0 0.000000 N
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| 825 |
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hsa-mir-4473 2 0.879405 N
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| 826 |
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hsa-mir-4474 0 0.000000 N
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| 827 |
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hsa-mir-4475 0 0.000000 N
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| 828 |
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hsa-mir-4476 0 0.000000 N
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| 829 |
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hsa-mir-4477a 0 0.000000 N
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| 830 |
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hsa-mir-4477b 0 0.000000 N
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| 831 |
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hsa-mir-4478 0 0.000000 N
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| 832 |
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hsa-mir-4479 0 0.000000 N
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| 833 |
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hsa-mir-448 0 0.000000 N
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| 834 |
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hsa-mir-4480 0 0.000000 N
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| 835 |
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hsa-mir-4481 0 0.000000 N
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| 836 |
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hsa-mir-4482 0 0.000000 N
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| 837 |
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hsa-mir-4483 0 0.000000 N
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| 838 |
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hsa-mir-4484 0 0.000000 N
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| 839 |
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hsa-mir-4485 0 0.000000 N
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| 840 |
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hsa-mir-4486 0 0.000000 N
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| 841 |
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hsa-mir-4487 0 0.000000 N
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| 842 |
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hsa-mir-4488 0 0.000000 N
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| 843 |
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hsa-mir-4489 0 0.000000 N
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| 844 |
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hsa-mir-4490 0 0.000000 N
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| 845 |
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hsa-mir-4491 2 0.879405 N
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hsa-mir-483 931 409.362845 N
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hsa-mir-500a 356 156.534020 Y
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hsa-mir-502 20 8.794046 Y
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| 1128 |
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hsa-mir-504 1 0.439702 N
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hsa-mir-508 57 25.063031 N
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| 1138 |
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| 1139 |
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| 1140 |
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| 1141 |
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hsa-mir-5090 1 0.439702 N
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| 1142 |
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| 1150 |
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hsa-mir-511 14 6.155832 N
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| 1151 |
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hsa-mir-512-1 1 0.439702 N
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hsa-mir-512-2 1 0.439702 N
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| 1153 |
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hsa-mir-513a-1 0 0.000000 N
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hsa-mir-513a-2 0 0.000000 N
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| 1155 |
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hsa-mir-513b 0 0.000000 N
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| 1156 |
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hsa-mir-513c 0 0.000000 N
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| 1157 |
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hsa-mir-514a-1 4 1.758809 N
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| 1158 |
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hsa-mir-514a-2 6 2.638214 N
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| 1159 |
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hsa-mir-514a-3 5 2.198512 N
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| 1160 |
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hsa-mir-514b 0 0.000000 N
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| 1161 |
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hsa-mir-515-1 0 0.000000 N
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| 1162 |
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hsa-mir-515-2 0 0.000000 N
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| 1163 |
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hsa-mir-516a-1 0 0.000000 N
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| 1164 |
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hsa-mir-516a-2 3 1.319107 N
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| 1165 |
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hsa-mir-516b-1 1 0.439702 N
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| 1166 |
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hsa-mir-516b-2 0 0.000000 N
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| 1167 |
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hsa-mir-517a 2 0.879405 Y
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| 1168 |
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hsa-mir-517b 2 0.879405 Y
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| 1169 |
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hsa-mir-517c 1 0.439702 Y
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| 1170 |
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hsa-mir-5186 0 0.000000 N
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hsa-mir-5187 1 0.439702 N
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| 1172 |
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hsa-mir-5188 0 0.000000 N
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| 1173 |
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hsa-mir-5189 0 0.000000 N
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hsa-mir-518a-1 0 0.000000 N
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| 1175 |
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hsa-mir-518a-2 0 0.000000 N
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| 1176 |
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hsa-mir-518b 0 0.000000 N
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| 1177 |
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hsa-mir-518c 4 1.758809 N
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| 1178 |
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| 1179 |
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hsa-mir-518e 1 0.439702 N
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| 1180 |
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hsa-mir-518f 2 0.879405 N
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| 1181 |
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| 1182 |
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hsa-mir-5192 0 0.000000 N
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| 1188 |
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hsa-mir-5197 0 0.000000 N
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| 1189 |
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hsa-mir-519a-1 1 0.439702 N
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| 1190 |
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hsa-mir-519a-2 2 0.879405 Y
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| 1191 |
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hsa-mir-519b 0 0.000000 N
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hsa-mir-519c 0 0.000000 N
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hsa-mir-519d 0 0.000000 N
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| 1194 |
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hsa-mir-519e 0 0.000000 N
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| 1195 |
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hsa-mir-520a 3 1.319107 N
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| 1196 |
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hsa-mir-520b 2 0.879405 Y
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| 1197 |
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| 1199 |
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| 1200 |
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hsa-mir-520f 0 0.000000 N
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| 1201 |
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hsa-mir-522 0 0.000000 N
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hsa-mir-524 0 0.000000 N
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| 1211 |
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| 1212 |
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| 1213 |
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hsa-mir-532 1770 778.273078 N
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| 1214 |
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hsa-mir-539 78 34.296780 N
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| 1215 |
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hsa-mir-541 1 0.439702 N
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| 1216 |
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hsa-mir-542 226 99.372721 N
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| 1217 |
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| 1218 |
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| 1219 |
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| 1220 |
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| 1221 |
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| 1227 |
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| 1260 |
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hsa-mir-574 879 386.498325 N
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hsa-mir-582 2940 1292.724774 N
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hsa-mir-584 232 102.010935 N
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hsa-mir-589 111 48.806956 N
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hsa-mir-598 84 36.934994 N
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hsa-mir-615 45 19.786604 N
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| 1450 |
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hsa-mir-616 25 10.992558 N
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hsa-mir-618 1 0.439702 N
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hsa-mir-624 7 3.077916 N
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| 1460 |
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hsa-mir-625 678 298.118162 N
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| 1461 |
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hsa-mir-626 0 0.000000 N
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| 1462 |
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hsa-mir-627 6 2.638214 N
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| 1463 |
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hsa-mir-628 594 261.183169 N
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| 1464 |
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hsa-mir-629 83 36.495291 N
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| 1465 |
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hsa-mir-630 0 0.000000 N
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| 1466 |
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hsa-mir-631 0 0.000000 N
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| 1467 |
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hsa-mir-632 2 0.879405 N
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| 1468 |
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hsa-mir-633 0 0.000000 N
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| 1469 |
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hsa-mir-634 0 0.000000 N
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| 1470 |
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hsa-mir-635 0 0.000000 N
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| 1471 |
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hsa-mir-636 1 0.439702 N
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| 1472 |
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hsa-mir-637 0 0.000000 N
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| 1473 |
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hsa-mir-638 0 0.000000 N
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| 1474 |
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hsa-mir-639 4 1.758809 N
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| 1475 |
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hsa-mir-640 0 0.000000 N
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| 1476 |
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hsa-mir-641 0 0.000000 N
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| 1477 |
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hsa-mir-642a 4 1.758809 N
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| 1478 |
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hsa-mir-642b 0 0.000000 N
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| 1479 |
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hsa-mir-643 8 3.517618 N
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| 1480 |
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hsa-mir-644a 0 0.000000 N
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| 1481 |
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hsa-mir-645 0 0.000000 N
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| 1482 |
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hsa-mir-646 0 0.000000 N
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| 1483 |
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hsa-mir-647 0 0.000000 N
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| 1484 |
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hsa-mir-648 0 0.000000 N
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| 1485 |
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hsa-mir-649 0 0.000000 N
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| 1486 |
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hsa-mir-6499 26 11.432260 N
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| 1487 |
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hsa-mir-650 0 0.000000 N
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| 1488 |
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hsa-mir-6500 0 0.000000 N
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| 1489 |
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hsa-mir-6501 0 0.000000 N
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| 1490 |
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hsa-mir-6502 1 0.439702 N
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| 1491 |
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hsa-mir-6503 0 0.000000 N
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| 1492 |
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hsa-mir-6504 0 0.000000 N
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| 1493 |
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hsa-mir-6505 0 0.000000 N
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| 1494 |
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hsa-mir-6506 0 0.000000 N
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| 1495 |
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hsa-mir-6507 0 0.000000 N
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| 1496 |
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hsa-mir-6508 3 1.319107 N
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| 1497 |
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hsa-mir-6509 1 0.439702 N
|
| 1498 |
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hsa-mir-651 24 10.552855 N
|
| 1499 |
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hsa-mir-6510 272 119.599027 N
|
| 1500 |
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hsa-mir-6511a-1 0 0.000000 N
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| 1501 |
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hsa-mir-6511a-2 0 0.000000 N
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| 1502 |
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hsa-mir-6511a-3 0 0.000000 N
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| 1503 |
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hsa-mir-6511a-4 0 0.000000 N
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| 1504 |
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hsa-mir-6511b-1 6 2.638214 N
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| 1505 |
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hsa-mir-6511b-2 2 0.879405 N
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| 1506 |
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hsa-mir-6512 0 0.000000 N
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| 1507 |
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hsa-mir-6513 0 0.000000 N
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| 1508 |
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hsa-mir-6514 1 0.439702 N
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| 1509 |
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hsa-mir-6515 0 0.000000 N
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| 1510 |
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hsa-mir-6516 3 1.319107 N
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| 1511 |
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hsa-mir-652 54 23.743924 N
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| 1512 |
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hsa-mir-653 49 21.545413 N
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| 1513 |
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hsa-mir-654 203 89.259568 N
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| 1514 |
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hsa-mir-655 18 7.914641 N
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| 1515 |
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hsa-mir-656 3 1.319107 N
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| 1516 |
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hsa-mir-657 0 0.000000 N
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| 1517 |
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hsa-mir-658 2 0.879405 N
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| 1518 |
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hsa-mir-659 9 3.957321 N
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| 1519 |
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hsa-mir-660 81 35.615887 N
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| 1520 |
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hsa-mir-661 0 0.000000 N
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| 1521 |
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hsa-mir-662 0 0.000000 N
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| 1522 |
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hsa-mir-663a 0 0.000000 N
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| 1523 |
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hsa-mir-663b 0 0.000000 N
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| 1524 |
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hsa-mir-664a 144 63.317132 N
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| 1525 |
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hsa-mir-664b 19 8.354344 N
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| 1526 |
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hsa-mir-665 7 3.077916 N
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| 1527 |
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hsa-mir-668 1 0.439702 N
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| 1528 |
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hsa-mir-670 0 0.000000 N
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| 1529 |
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hsa-mir-671 24 10.552855 N
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| 1530 |
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hsa-mir-6715a 2 0.879405 N
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| 1531 |
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hsa-mir-6715b 0 0.000000 N
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| 1532 |
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hsa-mir-6716 3 1.319107 N
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| 1533 |
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hsa-mir-6717 0 0.000000 N
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| 1534 |
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| 1535 |
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| 1537 |
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| 1538 |
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| 1539 |
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| 1540 |
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| 1550 |
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| 1551 |
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hsa-mir-6733 2 0.879405 N
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| 1552 |
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hsa-mir-6734 1 0.439702 N
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| 1553 |
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| 1554 |
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hsa-mir-6736 1 0.439702 N
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| 1555 |
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hsa-mir-6738 1 0.439702 N
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| 1560 |
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| 1561 |
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hsa-mir-6743 1 0.439702 N
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| 1562 |
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| 1564 |
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| 1567 |
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| 1568 |
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hsa-mir-675 7910 3478.045224 N
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| 1569 |
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| 1570 |
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| 1575 |
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| 1576 |
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hsa-mir-6757 1 0.439702 N
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| 1577 |
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hsa-mir-6758 1 0.439702 N
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| 1578 |
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hsa-mir-6759 0 0.000000 N
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| 1579 |
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hsa-mir-676 1 0.439702 N
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| 1580 |
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| 1589 |
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hsa-mir-6769a 2 0.879405 N
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| 1590 |
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| 1591 |
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hsa-mir-6770-1 0 0.000000 N
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hsa-mir-6772 2 0.879405 N
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hsa-mir-6776 0 0.000000 N
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| 1600 |
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hsa-mir-6780b 0 0.000000 N
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| 1605 |
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hsa-mir-6781 2 0.879405 N
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| 1606 |
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hsa-mir-6782 1 0.439702 N
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hsa-mir-6783 0 0.000000 N
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| 1608 |
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hsa-mir-6784 1 0.439702 N
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hsa-mir-6785 0 0.000000 N
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hsa-mir-6786 0 0.000000 N
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| 1612 |
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hsa-mir-6788 5 2.198512 N
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hsa-mir-6789 0 0.000000 N
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hsa-mir-6791 0 0.000000 N
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hsa-mir-6792 0 0.000000 N
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hsa-mir-6793 1 0.439702 N
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hsa-mir-6797 0 0.000000 N
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| 1622 |
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hsa-mir-6798 4 1.758809 N
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hsa-mir-6799 0 0.000000 N
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| 1626 |
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hsa-mir-6802 1 0.439702 N
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| 1627 |
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hsa-mir-6803 2 0.879405 N
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| 1628 |
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hsa-mir-6804 1 0.439702 N
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| 1630 |
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hsa-mir-6806 7 3.077916 N
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hsa-mir-6815 1 0.439702 N
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hsa-mir-6817 0 0.000000 N
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hsa-mir-6819 1 0.439702 N
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hsa-mir-6820 5 2.198512 N
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hsa-mir-6826 1 0.439702 N
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hsa-mir-6827 1 0.439702 N
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hsa-mir-6832 1 0.439702 N
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hsa-mir-6833 1 0.439702 N
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hsa-mir-6837 2 0.879405 N
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hsa-mir-6839 2 0.879405 N
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| 1666 |
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hsa-mir-6842 3 1.319107 N
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hsa-mir-6853 0 0.000000 N
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| 1678 |
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hsa-mir-6854 3 1.319107 N
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| 1679 |
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hsa-mir-6855 1 0.439702 N
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hsa-mir-6856 0 0.000000 N
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hsa-mir-6858 0 0.000000 N
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hsa-mir-6859-3 0 0.000000 N
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hsa-mir-6859-4 0 0.000000 N
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hsa-mir-6860 0 0.000000 N
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hsa-mir-6861 0 0.000000 N
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hsa-mir-6862-1 0 0.000000 N
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hsa-mir-6872 0 0.000000 N
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hsa-mir-6873 1 0.439702 N
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hsa-mir-6874 3 1.319107 N
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hsa-mir-6875 1 0.439702 N
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hsa-mir-6879 1 0.439702 N
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hsa-mir-6884 1 0.439702 N
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hsa-mir-6892 6 2.638214 N
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hsa-mir-6893 0 0.000000 N
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| 1722 |
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hsa-mir-6894 1 0.439702 N
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| 1723 |
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hsa-mir-6895 4 1.758809 N
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| 1724 |
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hsa-mir-7-1 63 27.701245 N
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| 1725 |
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hsa-mir-7-2 1 0.439702 N
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hsa-mir-7-3 0 0.000000 N
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| 1727 |
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hsa-mir-708 1763 775.195162 N
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hsa-mir-7109 1 0.439702 N
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hsa-mir-7112 2 0.879405 N
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hsa-mir-7155 1 0.439702 N
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hsa-mir-7156 1 0.439702 N
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hsa-mir-7157 0 0.000000 N
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hsa-mir-7162 0 0.000000 N
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hsa-mir-718 0 0.000000 N
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| 1752 |
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hsa-mir-744 330 145.101760 N
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| 1753 |
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hsa-mir-7515 0 0.000000 N
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| 1754 |
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hsa-mir-758 136 59.799513 N
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| 1755 |
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hsa-mir-759 0 0.000000 N
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| 1756 |
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hsa-mir-760 3 1.319107 N
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| 1757 |
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hsa-mir-761 0 0.000000 N
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hsa-mir-762 0 0.000000 N
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hsa-mir-764 0 0.000000 N
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| 1760 |
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hsa-mir-7641-1 0 0.000000 N
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| 1761 |
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hsa-mir-7641-2 0 0.000000 N
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| 1762 |
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hsa-mir-765 0 0.000000 N
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| 1763 |
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hsa-mir-766 6 2.638214 N
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| 1764 |
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hsa-mir-767 2 0.879405 N
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| 1765 |
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hsa-mir-769 110 48.367253 N
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| 1766 |
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hsa-mir-770 2 0.879405 N
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| 1767 |
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hsa-mir-7702 0 0.000000 N
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| 1768 |
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hsa-mir-7703 0 0.000000 N
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| 1769 |
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hsa-mir-7704 0 0.000000 N
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| 1770 |
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hsa-mir-7705 2 0.879405 N
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| 1771 |
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hsa-mir-7706 3 1.319107 N
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| 1772 |
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hsa-mir-7843 0 0.000000 N
|
| 1773 |
+
hsa-mir-7844 0 0.000000 N
|
| 1774 |
+
hsa-mir-7845 2 0.879405 N
|
| 1775 |
+
hsa-mir-7846 0 0.000000 N
|
| 1776 |
+
hsa-mir-7847 0 0.000000 N
|
| 1777 |
+
hsa-mir-7848 0 0.000000 N
|
| 1778 |
+
hsa-mir-7849 0 0.000000 N
|
| 1779 |
+
hsa-mir-7850 0 0.000000 N
|
| 1780 |
+
hsa-mir-7851 0 0.000000 N
|
| 1781 |
+
hsa-mir-7852 0 0.000000 N
|
| 1782 |
+
hsa-mir-7853 0 0.000000 N
|
| 1783 |
+
hsa-mir-7854 0 0.000000 N
|
| 1784 |
+
hsa-mir-7855 0 0.000000 N
|
| 1785 |
+
hsa-mir-7856 0 0.000000 N
|
| 1786 |
+
hsa-mir-7973-1 0 0.000000 N
|
| 1787 |
+
hsa-mir-7973-2 0 0.000000 N
|
| 1788 |
+
hsa-mir-7974 0 0.000000 N
|
| 1789 |
+
hsa-mir-7975 0 0.000000 N
|
| 1790 |
+
hsa-mir-7976 0 0.000000 N
|
| 1791 |
+
hsa-mir-7977 0 0.000000 N
|
| 1792 |
+
hsa-mir-7978 0 0.000000 N
|
| 1793 |
+
hsa-mir-802 0 0.000000 N
|
| 1794 |
+
hsa-mir-8052 0 0.000000 N
|
| 1795 |
+
hsa-mir-8053 0 0.000000 N
|
| 1796 |
+
hsa-mir-8054 0 0.000000 N
|
| 1797 |
+
hsa-mir-8055 0 0.000000 N
|
| 1798 |
+
hsa-mir-8056 0 0.000000 N
|
| 1799 |
+
hsa-mir-8057 0 0.000000 N
|
| 1800 |
+
hsa-mir-8058 0 0.000000 N
|
| 1801 |
+
hsa-mir-8059 0 0.000000 N
|
| 1802 |
+
hsa-mir-8060 0 0.000000 N
|
| 1803 |
+
hsa-mir-8061 0 0.000000 N
|
| 1804 |
+
hsa-mir-8062 0 0.000000 N
|
| 1805 |
+
hsa-mir-8063 0 0.000000 N
|
| 1806 |
+
hsa-mir-8064 0 0.000000 N
|
| 1807 |
+
hsa-mir-8065 0 0.000000 N
|
| 1808 |
+
hsa-mir-8066 0 0.000000 N
|
| 1809 |
+
hsa-mir-8067 0 0.000000 N
|
| 1810 |
+
hsa-mir-8068 0 0.000000 N
|
| 1811 |
+
hsa-mir-8069-1 0 0.000000 N
|
| 1812 |
+
hsa-mir-8069-2 0 0.000000 N
|
| 1813 |
+
hsa-mir-8070 0 0.000000 N
|
| 1814 |
+
hsa-mir-8071-1 0 0.000000 N
|
| 1815 |
+
hsa-mir-8071-2 0 0.000000 N
|
| 1816 |
+
hsa-mir-8072 0 0.000000 N
|
| 1817 |
+
hsa-mir-8073 0 0.000000 N
|
| 1818 |
+
hsa-mir-8074 0 0.000000 N
|
| 1819 |
+
hsa-mir-8075 0 0.000000 N
|
| 1820 |
+
hsa-mir-8076 0 0.000000 N
|
| 1821 |
+
hsa-mir-8077 0 0.000000 N
|
| 1822 |
+
hsa-mir-8078 0 0.000000 N
|
| 1823 |
+
hsa-mir-8079 0 0.000000 N
|
| 1824 |
+
hsa-mir-8080 0 0.000000 N
|
| 1825 |
+
hsa-mir-8081 0 0.000000 N
|
| 1826 |
+
hsa-mir-8082 0 0.000000 N
|
| 1827 |
+
hsa-mir-8083 0 0.000000 N
|
| 1828 |
+
hsa-mir-8084 0 0.000000 N
|
| 1829 |
+
hsa-mir-8085 0 0.000000 N
|
| 1830 |
+
hsa-mir-8086 0 0.000000 N
|
| 1831 |
+
hsa-mir-8087 0 0.000000 N
|
| 1832 |
+
hsa-mir-8088 0 0.000000 N
|
| 1833 |
+
hsa-mir-8089 0 0.000000 N
|
| 1834 |
+
hsa-mir-8485 0 0.000000 N
|
| 1835 |
+
hsa-mir-873 1 0.439702 N
|
| 1836 |
+
hsa-mir-874 87 38.254100 N
|
| 1837 |
+
hsa-mir-875 0 0.000000 N
|
| 1838 |
+
hsa-mir-876 3 1.319107 N
|
| 1839 |
+
hsa-mir-877 4 1.758809 N
|
| 1840 |
+
hsa-mir-885 1 0.439702 N
|
| 1841 |
+
hsa-mir-887 28 12.311665 N
|
| 1842 |
+
hsa-mir-888 0 0.000000 N
|
| 1843 |
+
hsa-mir-889 38 16.708688 N
|
| 1844 |
+
hsa-mir-890 0 0.000000 N
|
| 1845 |
+
hsa-mir-891a 3 1.319107 N
|
| 1846 |
+
hsa-mir-891b 0 0.000000 N
|
| 1847 |
+
hsa-mir-892a 0 0.000000 N
|
| 1848 |
+
hsa-mir-892b 0 0.000000 N
|
| 1849 |
+
hsa-mir-892c 0 0.000000 N
|
| 1850 |
+
hsa-mir-9-1 285 125.315157 N
|
| 1851 |
+
hsa-mir-9-2 309 135.868012 N
|
| 1852 |
+
hsa-mir-9-3 302 132.790096 N
|
| 1853 |
+
hsa-mir-920 0 0.000000 N
|
| 1854 |
+
hsa-mir-921 0 0.000000 N
|
| 1855 |
+
hsa-mir-922 0 0.000000 N
|
| 1856 |
+
hsa-mir-924 0 0.000000 N
|
| 1857 |
+
hsa-mir-92a-1 22860 10051.594668 N
|
| 1858 |
+
hsa-mir-92a-2 19817 8713.580557 N
|
| 1859 |
+
hsa-mir-92b 77 33.857077 N
|
| 1860 |
+
hsa-mir-93 12712 5589.495688 N
|
| 1861 |
+
hsa-mir-933 0 0.000000 N
|
| 1862 |
+
hsa-mir-934 55 24.183627 N
|
| 1863 |
+
hsa-mir-935 1 0.439702 N
|
| 1864 |
+
hsa-mir-936 0 0.000000 N
|
| 1865 |
+
hsa-mir-937 2 0.879405 N
|
| 1866 |
+
hsa-mir-938 0 0.000000 N
|
| 1867 |
+
hsa-mir-939 2 0.879405 N
|
| 1868 |
+
hsa-mir-940 10 4.397023 N
|
| 1869 |
+
hsa-mir-941-1 0 0.000000 N
|
| 1870 |
+
hsa-mir-941-2 0 0.000000 N
|
| 1871 |
+
hsa-mir-941-3 0 0.000000 N
|
| 1872 |
+
hsa-mir-941-4 0 0.000000 N
|
| 1873 |
+
hsa-mir-941-5 0 0.000000 N
|
| 1874 |
+
hsa-mir-942 20 8.794046 N
|
| 1875 |
+
hsa-mir-943 1 0.439702 N
|
| 1876 |
+
hsa-mir-944 42 18.467497 N
|
| 1877 |
+
hsa-mir-95 5 2.198512 N
|
| 1878 |
+
hsa-mir-9500 0 0.000000 N
|
| 1879 |
+
hsa-mir-96 108 47.487849 N
|
| 1880 |
+
hsa-mir-98 144 63.317132 N
|
| 1881 |
+
hsa-mir-99a 9380 4124.407611 Y
|
| 1882 |
+
hsa-mir-99b 134478 59130.286431 N
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_D07_778102.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,66 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 1 3301765 247650984 129736 0.0173
|
| 3 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 2 480597 173449027 93172 0.015
|
| 4 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 2 173449414 173449433 2 -1.2539
|
| 5 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 2 173451050 194022645 10987 0.0159
|
| 6 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 2 194023328 194028090 4 -0.922
|
| 7 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 2 194033976 241537572 28007 0.0151
|
| 8 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 3 2170634 197812401 107141 0.0158
|
| 9 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 4 1059384 187842528 103465 0.0155
|
| 10 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 5 914118 31655538 18474 0.0097
|
| 11 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 5 31656619 31656661 2 -1.7851
|
| 12 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 5 31656991 54578006 9949 0.0134
|
| 13 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 5 54578164 54578346 2 -1.568
|
| 14 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 5 54579739 180934240 72665 0.0165
|
| 15 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 1011760 121357037 67389 0.0154
|
| 16 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 121357257 121375640 11 -0.5301
|
| 17 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 121377103 130343503 5358 0.0125
|
| 18 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 130344244 130358355 7 -0.8761
|
| 19 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 130358820 164810621 21845 0.0133
|
| 20 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 164810645 164813387 5 -0.8905
|
| 21 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 6 164816537 170596889 2538 0.0074
|
| 22 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 7 664936 24789826 12984 0.0194
|
| 23 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 7 24792341 24792836 2 -1.9406
|
| 24 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 7 24793532 158592540 68938 0.0182
|
| 25 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 8 667625 144182542 82196 0.0173
|
| 26 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 9 789794 23283687 14515 0.0101
|
| 27 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 9 23293242 23297362 3 -1.1654
|
| 28 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 9 23303967 78406372 16049 0.017
|
| 29 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 9 78406746 78412311 4 -1.092
|
| 30 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 9 78416406 138044505 37881 0.0156
|
| 31 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 10 366509 113612285 68412 0.0148
|
| 32 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 10 113612397 113612826 2 -1.5413
|
| 33 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 10 113616143 133411599 12859 0.0119
|
| 34 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 11 456012 82658085 44127 0.0164
|
| 35 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 11 82658565 82674676 6 -0.9064
|
| 36 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 11 82675398 134272740 33415 0.0151
|
| 37 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 12 780472 73594001 39640 0.0146
|
| 38 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 12 73597646 73603601 7 -0.7926
|
| 39 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 12 73604806 132605822 34683 0.0162
|
| 40 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 13 18874255 85282930 38548 0.0157
|
| 41 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 13 85287013 85299595 17 0.4625
|
| 42 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 13 85300014 114226675 18428 0.0119
|
| 43 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 14 20033191 105533894 49766 0.0158
|
| 44 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 15 23437561 39698806 8184 0.0121
|
| 45 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 15 39699141 41907269 1065 -0.9952
|
| 46 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 15 41912753 101344124 35516 0.017
|
| 47 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 16 603333 89317317 41193 0.0169
|
| 48 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 17 1074619 41348899 16157 0.0149
|
| 49 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 17 41370168 41391076 12 0.5208
|
| 50 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 17 41393899 57529910 8208 0.0171
|
| 51 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 17 57530230 57530308 2 -2.0434
|
| 52 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 17 57530311 82959812 12896 0.0158
|
| 53 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 18 326691 79349796 42955 0.0151
|
| 54 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 19 283868 58370362 24142 0.0199
|
| 55 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 20 472817 63588502 37533 0.0141
|
| 56 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 21 13974127 46262057 20596 0.0164
|
| 57 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 22 16934932 48940621 17088 0.0271
|
| 58 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 3236359 15696773 4868 0.0127
|
| 59 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 15696824 15696827 3 -0.9166
|
| 60 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 15696831 18763587 1525 0.0011
|
| 61 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 18763919 18764103 2 -1.4298
|
| 62 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 18764625 116739965 39724 0.0159
|
| 63 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 116746720 116755592 13 -0.8421
|
| 64 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 116761246 153440890 17438 0.0153
|
| 65 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 153441345 153442159 2 -1.22
|
| 66 |
+
d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8 X 153442410 155677414 381 0.0001
|
processed_otsu/0045349c-69d9-4306-a403-c9c1fa836644_GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_D08_777960.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,50 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 1 3301765 247650984 129720 0.0149
|
| 3 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 2 480597 241537572 132170 0.0135
|
| 4 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 3 2170634 197812401 107138 0.0134
|
| 5 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 4 1059384 187842528 103451 0.0121
|
| 6 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 5 914118 2778797 888 0.0183
|
| 7 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 5 2782251 2782601 3 -1.258
|
| 8 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 5 2783344 54578006 27539 0.0134
|
| 9 |
+
c7617c39-43fd-42b6-9e97-27525a2df44c 5 54578164 54578346 2 -2.1202
|
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ADDED
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ADDED
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|
|
| 1 |
+
<?xml version="1.0" encoding="UTF-8"?>
|
| 2 |
+
<bio:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/biospecimen/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/biospecimen/2.7/TCGA_BCR.Biospecimen.xsd" schemaVersion="2.7" xmlns:bio="http://tcga.nci/bcr/xml/biospecimen/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:bio_shared="http://tcga.nci/bcr/xml/biospecimen/shared/2.7">
|
| 3 |
+
<admin:admin>
|
| 4 |
+
<admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
|
| 5 |
+
<admin:file_uuid xsd_ver="2.6">A202E33F-830C-4BC1-8264-07CD02E831CA</admin:file_uuid>
|
| 6 |
+
<admin:batch_number xsd_ver="1.17">117.79.0</admin:batch_number>
|
| 7 |
+
<admin:project_code xsd_ver="">TCGA</admin:project_code>
|
| 8 |
+
<admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
|
| 9 |
+
<admin:day_of_dcc_upload xsd_ver="1.17">1</admin:day_of_dcc_upload>
|
| 10 |
+
<admin:month_of_dcc_upload xsd_ver="1.17">7</admin:month_of_dcc_upload>
|
| 11 |
+
<admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
|
| 12 |
+
</admin:admin>
|
| 13 |
+
<bio:patient>
|
| 14 |
+
<admin:additional_studies/>
|
| 15 |
+
<shared:bcr_patient_barcode cde="2673794" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB</shared:bcr_patient_barcode>
|
| 16 |
+
<shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0045349c-69d9-4306-a403-c9c1fa836644</shared:bcr_patient_uuid>
|
| 17 |
+
<shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A1</shared:tissue_source_site>
|
| 18 |
+
<shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A0SB</shared:patient_id>
|
| 19 |
+
<shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 20 |
+
<bio:days_to_index precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">0</bio:days_to_index>
|
| 21 |
+
<bio:bcr_canonical_check>
|
| 22 |
+
<bio:bcr_patient_canonical_status cde="" xsd_ver="2.6" procurement_status="Completed" owner="">Canonical</bio:bcr_patient_canonical_status>
|
| 23 |
+
</bio:bcr_canonical_check>
|
| 24 |
+
<bio:samples>
|
| 25 |
+
<bio:sample>
|
| 26 |
+
<admin:additional_studies/>
|
| 27 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:sample_type_id>
|
| 28 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
|
| 29 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 30 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Primary Tumor</bio:sample_type>
|
| 31 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 32 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 33 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 34 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">120</bio:initial_weight>
|
| 35 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 36 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 37 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">true</bio:oct_embedded>
|
| 38 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 39 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 40 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 41 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 42 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">764</bio:days_to_collection>
|
| 43 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 44 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 45 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A</bio:bcr_sample_barcode>
|
| 46 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f66358d4-9319-4c23-983d-ab5056daacf1</bio:bcr_sample_uuid>
|
| 47 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 48 |
+
<bio:portions>
|
| 49 |
+
<bio:portion>
|
| 50 |
+
<admin:additional_studies/>
|
| 51 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
|
| 52 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
|
| 53 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">29</bio:day_of_creation>
|
| 54 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_creation>
|
| 55 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
|
| 56 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
|
| 57 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11</bio:bcr_portion_barcode>
|
| 58 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">dd56c847-3686-4581-adc2-0f3470a97632</bio:bcr_portion_uuid>
|
| 59 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 60 |
+
<bio:analytes>
|
| 61 |
+
<bio:analyte>
|
| 62 |
+
<admin:additional_studies/>
|
| 63 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 64 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 65 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 66 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 67 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.86</bio:a260_a280_ratio>
|
| 68 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 69 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 70 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11D</bio:bcr_analyte_barcode>
|
| 71 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">111bffdf-9ffd-4e33-8e19-961b3c75d2ad</bio:bcr_analyte_uuid>
|
| 72 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 73 |
+
<bio:aliquots>
|
| 74 |
+
<bio:aliquot>
|
| 75 |
+
<admin:additional_studies/>
|
| 76 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A140</bio:plate_id>
|
| 77 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 78 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 79 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 80 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 81 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11D-A140-02</bio:bcr_aliquot_barcode>
|
| 82 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">cf5b6ec5-7c80-4113-be05-6e54ba99bc6d</bio:bcr_aliquot_uuid>
|
| 83 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 84 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 85 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 86 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 87 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
|
| 88 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474810</bio:biospecimen_barcode_bottom>
|
| 89 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 90 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 91 |
+
</bio:aliquot>
|
| 92 |
+
<bio:aliquot>
|
| 93 |
+
<admin:additional_studies/>
|
| 94 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A141</bio:plate_id>
|
| 95 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 96 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 97 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 98 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 99 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11D-A141-01</bio:bcr_aliquot_barcode>
|
| 100 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8</bio:bcr_aliquot_uuid>
|
| 101 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 102 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 103 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 104 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 105 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
|
| 106 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100475962</bio:biospecimen_barcode_bottom>
|
| 107 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 108 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 109 |
+
</bio:aliquot>
|
| 110 |
+
<bio:aliquot>
|
| 111 |
+
<admin:additional_studies/>
|
| 112 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A142</bio:plate_id>
|
| 113 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 114 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 115 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 116 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 117 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11D-A142-09</bio:bcr_aliquot_barcode>
|
| 118 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">db9d40fb-bfce-4c3b-a6c2-41c5c88982f1</bio:bcr_aliquot_uuid>
|
| 119 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 120 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.20</bio:quantity>
|
| 121 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:volume>
|
| 122 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 123 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
|
| 124 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474714</bio:biospecimen_barcode_bottom>
|
| 125 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 126 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 127 |
+
</bio:aliquot>
|
| 128 |
+
<bio:aliquot>
|
| 129 |
+
<admin:additional_studies/>
|
| 130 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A145</bio:plate_id>
|
| 131 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
|
| 132 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 133 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 134 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 135 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11D-A145-05</bio:bcr_aliquot_barcode>
|
| 136 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">41e4e50f-cc77-4b97-8918-c632e83df75a</bio:bcr_aliquot_uuid>
|
| 137 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 138 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 139 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 140 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 141 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
|
| 142 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100475386</bio:biospecimen_barcode_bottom>
|
| 143 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 144 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 145 |
+
</bio:aliquot>
|
| 146 |
+
</bio:aliquots>
|
| 147 |
+
<bio:protocols>
|
| 148 |
+
<bio:protocol>
|
| 149 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
|
| 150 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 151 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 152 |
+
</bio:protocol>
|
| 153 |
+
</bio:protocols>
|
| 154 |
+
<bio:dna>
|
| 155 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 156 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 157 |
+
</bio:dna>
|
| 158 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 159 |
+
</bio:analyte>
|
| 160 |
+
<bio:analyte>
|
| 161 |
+
<admin:additional_studies/>
|
| 162 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 163 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
|
| 164 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
|
| 165 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 166 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.04</bio:a260_a280_ratio>
|
| 167 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 168 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 169 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11R</bio:bcr_analyte_barcode>
|
| 170 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f461ddd2-2e96-4533-a5e6-880c40525bd5</bio:bcr_analyte_uuid>
|
| 171 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 172 |
+
<bio:aliquots>
|
| 173 |
+
<bio:aliquot>
|
| 174 |
+
<admin:additional_studies/>
|
| 175 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A143</bio:plate_id>
|
| 176 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
|
| 177 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 178 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 179 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 180 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11R-A143-13</bio:bcr_aliquot_barcode>
|
| 181 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">859615ef-7c9a-4ab9-b9f0-0b62674b60e1</bio:bcr_aliquot_uuid>
|
| 182 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 183 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.00</bio:quantity>
|
| 184 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
|
| 185 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 186 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 187 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100475726</bio:biospecimen_barcode_bottom>
|
| 188 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 189 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 190 |
+
</bio:aliquot>
|
| 191 |
+
<bio:aliquot>
|
| 192 |
+
<admin:additional_studies/>
|
| 193 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A144</bio:plate_id>
|
| 194 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
|
| 195 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 196 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 197 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 198 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11R-A144-07</bio:bcr_aliquot_barcode>
|
| 199 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a2405d64-34eb-4915-abf7-8530151d5cb0</bio:bcr_aliquot_uuid>
|
| 200 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
|
| 201 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.01</bio:quantity>
|
| 202 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 203 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 204 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 205 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100475590</bio:biospecimen_barcode_bottom>
|
| 206 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 207 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 208 |
+
</bio:aliquot>
|
| 209 |
+
</bio:aliquots>
|
| 210 |
+
<bio:protocols>
|
| 211 |
+
<bio:protocol>
|
| 212 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">mirVana (Allprep DNA) RNA</bio:experimental_protocol_type>
|
| 213 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 214 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 215 |
+
</bio:protocol>
|
| 216 |
+
</bio:protocols>
|
| 217 |
+
<bio:rna>
|
| 218 |
+
<bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.30</bio:ratio_28s_18s>
|
| 219 |
+
<bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8.70</bio:rinvalue>
|
| 220 |
+
</bio:rna>
|
| 221 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 222 |
+
</bio:analyte>
|
| 223 |
+
<bio:analyte>
|
| 224 |
+
<admin:additional_studies/>
|
| 225 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 226 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 227 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 228 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 229 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 230 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 231 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 232 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11W</bio:bcr_analyte_barcode>
|
| 233 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D9ACC66C-E592-4406-A3D1-3031E94FDB40</bio:bcr_analyte_uuid>
|
| 234 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 235 |
+
<bio:aliquots>
|
| 236 |
+
<bio:aliquot>
|
| 237 |
+
<admin:additional_studies/>
|
| 238 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A187</bio:plate_id>
|
| 239 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 240 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 241 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
|
| 242 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 243 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-11W-A187-09</bio:bcr_aliquot_barcode>
|
| 244 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2F329113-7292-4150-9329-965FA930353D</bio:bcr_aliquot_uuid>
|
| 245 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 246 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 247 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 248 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 249 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
|
| 250 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113419330</bio:biospecimen_barcode_bottom>
|
| 251 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 252 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 253 |
+
</bio:aliquot>
|
| 254 |
+
</bio:aliquots>
|
| 255 |
+
<bio:protocols>
|
| 256 |
+
<bio:protocol>
|
| 257 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 258 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 259 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 260 |
+
</bio:protocol>
|
| 261 |
+
</bio:protocols>
|
| 262 |
+
<bio:dna>
|
| 263 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 264 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 265 |
+
</bio:dna>
|
| 266 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 267 |
+
</bio:analyte>
|
| 268 |
+
</bio:analytes>
|
| 269 |
+
<bio:slides>
|
| 270 |
+
<bio:slide>
|
| 271 |
+
<admin:additional_studies/>
|
| 272 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">BOTTOM</bio:section_location>
|
| 273 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 274 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_tumor_cells>
|
| 275 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_tumor_nuclei>
|
| 276 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">4</bio:percent_normal_cells>
|
| 277 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
|
| 278 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">16</bio:percent_stromal_cells>
|
| 279 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 280 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_lymphocyte_infiltration>
|
| 281 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 282 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 283 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 284 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 285 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-01-BS1</shared:bcr_slide_barcode>
|
| 286 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0af5f17f-e9a6-4424-8eae-728878063437</shared:bcr_slide_uuid>
|
| 287 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-01-BS1.0af5f17f-e9a6-4424-8eae-728878063437.svs</shared:image_file_name>
|
| 288 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 289 |
+
</bio:slide>
|
| 290 |
+
<bio:slide>
|
| 291 |
+
<admin:additional_studies/>
|
| 292 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 293 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 294 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_cells>
|
| 295 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_nuclei>
|
| 296 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_normal_cells>
|
| 297 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
|
| 298 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:percent_stromal_cells>
|
| 299 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 300 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_lymphocyte_infiltration>
|
| 301 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 302 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 303 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 304 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 305 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-01-TS1</shared:bcr_slide_barcode>
|
| 306 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ed80b57e-ce46-45d6-b8cf-bb18e254488f</shared:bcr_slide_uuid>
|
| 307 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A1-A0SB-01A-01-TS1.ed80b57e-ce46-45d6-b8cf-bb18e254488f.svs</shared:image_file_name>
|
| 308 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 309 |
+
</bio:slide>
|
| 310 |
+
</bio:slides>
|
| 311 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 312 |
+
</bio:portion>
|
| 313 |
+
</bio:portions>
|
| 314 |
+
<bio:tumor_pathology/>
|
| 315 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 316 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 317 |
+
<shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 318 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">BEC7EEA9-6DEA-4402-A3A1-07EF33D58174</bio:pathology_report_uuid>
|
| 319 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A1-A0SB.BEC7EEA9-6DEA-4402-A3A1-07EF33D58174.pdf</bio:pathology_report_file_name>
|
| 320 |
+
<bio:diagnostic_slides>
|
| 321 |
+
<admin:additional_studies/>
|
| 322 |
+
<bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">B34C267B-CAAA-4AB6-AD5C-276C26F997A1</bio:ffpe_slide_uuid>
|
| 323 |
+
</bio:diagnostic_slides>
|
| 324 |
+
</bio:sample>
|
| 325 |
+
<bio:sample>
|
| 326 |
+
<admin:additional_studies/>
|
| 327 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">10</bio:sample_type_id>
|
| 328 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">B</bio:vial_number>
|
| 329 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 330 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Blood Derived Normal</bio:sample_type>
|
| 331 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 332 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 333 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 334 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 335 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 336 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 337 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
|
| 338 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 339 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 340 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 341 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 342 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">982</bio:days_to_collection>
|
| 343 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 344 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 345 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B</bio:bcr_sample_barcode>
|
| 346 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3de77930-3151-4658-871e-20a8b7adb9e8</bio:bcr_sample_uuid>
|
| 347 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 348 |
+
<bio:portions>
|
| 349 |
+
<bio:portion>
|
| 350 |
+
<admin:additional_studies/>
|
| 351 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:portion_number>
|
| 352 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
|
| 353 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">31</bio:day_of_creation>
|
| 354 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:month_of_creation>
|
| 355 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
|
| 356 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.00</bio:weight>
|
| 357 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01</bio:bcr_portion_barcode>
|
| 358 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">98579067-74f7-4a39-b715-9124cf358797</bio:bcr_portion_uuid>
|
| 359 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 360 |
+
<bio:analytes>
|
| 361 |
+
<bio:analyte>
|
| 362 |
+
<admin:additional_studies/>
|
| 363 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 364 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 365 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 366 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 367 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.91</bio:a260_a280_ratio>
|
| 368 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 369 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 370 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01D</bio:bcr_analyte_barcode>
|
| 371 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c8b80ad4-053c-4083-999d-d6756e94b8c3</bio:bcr_analyte_uuid>
|
| 372 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 373 |
+
<bio:aliquots>
|
| 374 |
+
<bio:aliquot>
|
| 375 |
+
<admin:additional_studies/>
|
| 376 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A140</bio:plate_id>
|
| 377 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 378 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 379 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 380 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 381 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01D-A140-02</bio:bcr_aliquot_barcode>
|
| 382 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1af66054-d66a-4df0-9b44-d042d0614f60</bio:bcr_aliquot_uuid>
|
| 383 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 384 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 385 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 386 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 387 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
|
| 388 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474804</bio:biospecimen_barcode_bottom>
|
| 389 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 390 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 391 |
+
</bio:aliquot>
|
| 392 |
+
<bio:aliquot>
|
| 393 |
+
<admin:additional_studies/>
|
| 394 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A141</bio:plate_id>
|
| 395 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 396 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 397 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 398 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 399 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01D-A141-01</bio:bcr_aliquot_barcode>
|
| 400 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c7617c39-43fd-42b6-9e97-27525a2df44c</bio:bcr_aliquot_uuid>
|
| 401 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 402 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 403 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 404 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 405 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
|
| 406 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100475956</bio:biospecimen_barcode_bottom>
|
| 407 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 408 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 409 |
+
</bio:aliquot>
|
| 410 |
+
<bio:aliquot>
|
| 411 |
+
<admin:additional_studies/>
|
| 412 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A142</bio:plate_id>
|
| 413 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 414 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:day_of_shipment>
|
| 415 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
|
| 416 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 417 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01D-A142-09</bio:bcr_aliquot_barcode>
|
| 418 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a3254f8e-3bbd-42fc-abea-a5f25b7648b3</bio:bcr_aliquot_uuid>
|
| 419 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 420 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.20</bio:quantity>
|
| 421 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:volume>
|
| 422 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 423 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
|
| 424 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474708</bio:biospecimen_barcode_bottom>
|
| 425 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 426 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 427 |
+
</bio:aliquot>
|
| 428 |
+
</bio:aliquots>
|
| 429 |
+
<bio:protocols>
|
| 430 |
+
<bio:protocol>
|
| 431 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
|
| 432 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 433 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 434 |
+
</bio:protocol>
|
| 435 |
+
</bio:protocols>
|
| 436 |
+
<bio:dna>
|
| 437 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 438 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 439 |
+
</bio:dna>
|
| 440 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 441 |
+
</bio:analyte>
|
| 442 |
+
<bio:analyte>
|
| 443 |
+
<admin:additional_studies/>
|
| 444 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 445 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 446 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 447 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 448 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 449 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 450 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 451 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01W</bio:bcr_analyte_barcode>
|
| 452 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6BD074B0-B5CB-4C51-AC2C-3F39EA451AAF</bio:bcr_analyte_uuid>
|
| 453 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 454 |
+
<bio:aliquots>
|
| 455 |
+
<bio:aliquot>
|
| 456 |
+
<admin:additional_studies/>
|
| 457 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A187</bio:plate_id>
|
| 458 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 459 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 460 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
|
| 461 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 462 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A1-A0SB-10B-01W-A187-09</bio:bcr_aliquot_barcode>
|
| 463 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">EE50E8DB-6A4D-48CB-AC13-5EB41436B0AE</bio:bcr_aliquot_uuid>
|
| 464 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 465 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 466 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 467 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 468 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
|
| 469 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113419501</bio:biospecimen_barcode_bottom>
|
| 470 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 471 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 472 |
+
</bio:aliquot>
|
| 473 |
+
</bio:aliquots>
|
| 474 |
+
<bio:protocols>
|
| 475 |
+
<bio:protocol>
|
| 476 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 477 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 478 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 479 |
+
</bio:protocol>
|
| 480 |
+
</bio:protocols>
|
| 481 |
+
<bio:dna>
|
| 482 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 483 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 484 |
+
</bio:dna>
|
| 485 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 486 |
+
</bio:analyte>
|
| 487 |
+
</bio:analytes>
|
| 488 |
+
<bio:slides/>
|
| 489 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 490 |
+
</bio:portion>
|
| 491 |
+
</bio:portions>
|
| 492 |
+
<bio:tumor_pathology/>
|
| 493 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 494 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 495 |
+
<shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 496 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
|
| 497 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 498 |
+
<bio:diagnostic_slides>
|
| 499 |
+
<admin:additional_studies/>
|
| 500 |
+
</bio:diagnostic_slides>
|
| 501 |
+
</bio:sample>
|
| 502 |
+
</bio:samples>
|
| 503 |
+
</bio:patient>
|
| 504 |
+
</bio:tcga_bcr>
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_1f83f540-ab45-4d28-b7b9-895e44bf369e.mirbase21.isoforms.quantification.txt
ADDED
|
The diff for this file is too large to render.
See raw diff
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|
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_66418885-39f5-458c-a032-640eaf030b79.methylation_array.sesame.level3betas.txt
ADDED
|
@@ -0,0 +1,3 @@
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|
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|
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|
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|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
+
oid sha256:8216f5dd7ad6a13fdb6f9b59574b44d7e65494a139f6c73699ccf5cdccffe679
|
| 3 |
+
size 12907135
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_66418885-39f5-458c-a032-640eaf030b79_noid_Red.idat
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
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oid sha256:6302c413083d0ded641d08d862f14d2da403b2e7c56d3801892000eb0f049ed3
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| 3 |
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size 8091485
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processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_8d3d544f-6d1a-4cdc-8091-490311487ebd.rna_seq.augmented_star_gene_counts.tsv
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G08_734684.grch38.seg.v2.txt
ADDED
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@@ -0,0 +1,541 @@
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| 1 |
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| 2 |
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|
| 521 |
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|
| 522 |
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|
| 523 |
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|
| 524 |
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|
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|
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|
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|
| 528 |
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|
| 529 |
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|
| 530 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 108675248 138487253 16825 0.0431
|
| 531 |
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|
| 532 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 138487380 140776978 1447 0.0282
|
| 533 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 140779147 141814060 549 -0.1651
|
| 534 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 141815440 141815817 2 -1.718
|
| 535 |
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|
| 536 |
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|
| 537 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 151091672 155804692 2378 -0.1532
|
| 538 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec X 155806936 155952689 5 0.3199
|
| 539 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec Y 2782397 3117554 150 -2.796
|
| 540 |
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e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec Y 3137227 6075631 566 -2.4114
|
| 541 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec Y 6076562 56872112 5919 -2.8462
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G08_734684.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,149 @@
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|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec 1 3301765 20206154 9546 0.0954
|
| 3 |
+
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|
| 4 |
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|
| 5 |
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|
| 6 |
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|
| 7 |
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|
| 8 |
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|
| 9 |
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|
| 10 |
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|
| 11 |
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|
| 12 |
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|
| 13 |
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|
| 14 |
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|
| 15 |
+
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|
| 16 |
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|
| 17 |
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|
| 18 |
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|
| 19 |
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|
| 20 |
+
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|
| 21 |
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|
| 22 |
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|
| 23 |
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|
| 24 |
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|
| 25 |
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|
| 26 |
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|
| 27 |
+
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|
| 28 |
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|
| 29 |
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|
| 30 |
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|
| 31 |
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|
| 32 |
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|
| 33 |
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|
| 34 |
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|
| 35 |
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|
| 36 |
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|
| 37 |
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|
| 38 |
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|
| 39 |
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|
| 40 |
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|
| 41 |
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|
| 42 |
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| 50 |
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| 54 |
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| 55 |
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|
| 56 |
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| 57 |
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| 58 |
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| 59 |
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| 60 |
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| 61 |
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| 62 |
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|
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|
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|
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|
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|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G09_734640.grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,341 @@
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|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 62920 98602 13 -0.7951
|
| 3 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 259407 16785682 8682 0.0183
|
| 4 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 16787932 16935752 58 -0.3116
|
| 5 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 16949746 25256850 5264 0.0207
|
| 6 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 25266637 25320455 24 -1.9693
|
| 7 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 25336819 72284670 28727 0.0155
|
| 8 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 72290430 72297687 9 -0.8688
|
| 9 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 72302735 72345465 48 0.9492
|
| 10 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 72346221 105459522 20948 0.0169
|
| 11 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 105459540 105486052 26 -0.2795
|
| 12 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 105486456 110833598 3481 0.0211
|
| 13 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 110834746 110840856 32 -0.7421
|
| 14 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 110841157 112153465 1084 0.0225
|
| 15 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 112153571 112154619 21 -0.3391
|
| 16 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 112154754 116802566 3009 0.0163
|
| 17 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 116808457 116810484 3 -1.2061
|
| 18 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 116817513 143734438 2248 0.0107
|
| 19 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 143748012 143796140 23 0.4356
|
| 20 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 143811517 152787202 2523 0.005
|
| 21 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 152789447 152801429 38 0.4796
|
| 22 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 152804279 171465192 12809 0.0153
|
| 23 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 171465297 171465502 2 -2.0094
|
| 24 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 171466403 174827267 1995 0.0211
|
| 25 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 174827418 174832702 16 -0.7255
|
| 26 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 174832716 189679027 9901 0.0163
|
| 27 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 189679353 189679397 2 -2.0645
|
| 28 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 189682917 236736803 31889 0.0156
|
| 29 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 236736917 236737237 5 0.9072
|
| 30 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 236738518 248930189 8706 0.0104
|
| 31 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 12784 34476327 24082 0.0251
|
| 32 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 34476516 34511990 44 0.5179
|
| 33 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 34512096 42406144 5941 0.0179
|
| 34 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 42408238 42415625 6 -0.9834
|
| 35 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 42418467 52514599 7052 0.0184
|
| 36 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 52516787 52554359 38 0.4686
|
| 37 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 52554366 86710564 21914 0.0171
|
| 38 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 86725947 86726731 2 -1.6038
|
| 39 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 86743283 89305244 855 0.0159
|
| 40 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 89896149 90262403 131 -0.7606
|
| 41 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 90281849 146106861 30345 0.0204
|
| 42 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 2 146106875 146109366 22 0.7337
|
| 43 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 2 146120238 228892290 50842 0.0199
|
| 44 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 2 228894763 228895503 13 -0.6789
|
| 45 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 2 228900174 242147305 8196 0.0206
|
| 46 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 20930 5347494 4707 0.0092
|
| 47 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 5348552 5393278 35 -0.8706
|
| 48 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 5394391 13579820 6408 0.0198
|
| 49 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 13580032 13580411 4 -1.2291
|
| 50 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 13583399 65008649 33961 0.018
|
| 51 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 65012946 65035121 24 0.6077
|
| 52 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 65041738 65203560 169 0.0249
|
| 53 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 3 65203644 65224777 51 -0.6011
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|
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41f1ff30-b93a-4514-adc2-44243095f3ce 18 65540037 66060439 362 0.028
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| 297 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 19 90910 35364547 16704 0.0144
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41f1ff30-b93a-4514-adc2-44243095f3ce 19 51651652 58429147 4283 0.0079
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|
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41f1ff30-b93a-4514-adc2-44243095f3ce 19 58434689 58586487 52 0.0133
|
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41f1ff30-b93a-4514-adc2-44243095f3ce 20 80664 726179 481 0.0026
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|
| 316 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 21 13028413 13177644 18 -0.5031
|
| 317 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 21 13189617 13583316 156 0.0378
|
| 318 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 21 13612103 13677975 4 -1.062
|
| 319 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 21 13803967 46677045 23588 0.0127
|
| 320 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 15294547 15474116 8 0.5346
|
| 321 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 15479574 18760927 1127 -0.0088
|
| 322 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 18760941 18917479 6 0.7051
|
| 323 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 18918078 22114208 1978 0.0186
|
| 324 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 22119549 22120255 6 -2.7152
|
| 325 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 22127104 25296774 2101 0.0069
|
| 326 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 25304367 25526375 273 0.4802
|
| 327 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 25526380 28259023 2546 0.0125
|
| 328 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 28259473 28259583 2 -1.475
|
| 329 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 28260122 33793079 3618 0.0204
|
| 330 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 33795133 33797245 6 -0.7997
|
| 331 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 33799732 42496590 5477 0.0109
|
| 332 |
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41f1ff30-b93a-4514-adc2-44243095f3ce 22 42501276 42554485 25 -0.3308
|
| 333 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 22 42559425 49108219 5088 0.0109
|
| 334 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 22 49108532 49108811 2 1.573
|
| 335 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 22 49108983 50796027 1007 0.0295
|
| 336 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce X 251810 151124426 81275 0.0172
|
| 337 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce X 151125462 151126987 2 -1.807
|
| 338 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce X 151128083 155952689 2363 0.0167
|
| 339 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce Y 2782397 3117554 150 -2.8437
|
| 340 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce Y 3137227 6075631 569 -2.4627
|
| 341 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce Y 6076562 56872112 5918 -2.8855
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G09_734640.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,69 @@
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|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 3301765 171465192 81684 0.0164
|
| 3 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 171465297 171465502 2 -2.0094
|
| 4 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 1 171466403 247650984 48083 0.0154
|
| 5 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 480597 36404455 21717 0.0254
|
| 6 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 36404636 39063284 1373 -0.0155
|
| 7 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 39063755 42397825 2075 0.0168
|
| 8 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 42400329 42406144 7 0.2634
|
| 9 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 42408238 42415625 6 -0.9791
|
| 10 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 42418467 103757724 29888 0.019
|
| 11 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 103759197 103761025 3 1.2565
|
| 12 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 2 103765351 241537572 77132 0.0201
|
| 13 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 2170634 45405525 25812 0.0185
|
| 14 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 45407881 45408441 2 1.1639
|
| 15 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 45408457 65008649 10947 0.0185
|
| 16 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 65012946 65035121 24 0.6077
|
| 17 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 65041738 83454269 11247 0.0145
|
| 18 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 83455161 83463708 10 -0.909
|
| 19 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 3 83466639 197812401 59137 0.0167
|
| 20 |
+
41f1ff30-b93a-4514-adc2-44243095f3ce 4 1059384 187842528 103487 0.0142
|
| 21 |
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ADDED
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| 1 |
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GDC_Aliquot_ID Chromosome Start End Num_Probes Segment_Mean
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processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128-01A-21-A13E-20_RPPA_data.tsv
ADDED
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@@ -0,0 +1,488 @@
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| 1 |
+
AGID lab_id catalog_number set_id peptide_target protein_expression
|
| 2 |
+
AGID00100 882 sc-628 Old 1433BETA 0.1534335
|
| 3 |
+
AGID00111 913 sc-23957 Old 1433EPSILON 0.0473065
|
| 4 |
+
AGID00101 883 sc-1019 Old 1433ZETA 0.494385
|
| 5 |
+
AGID00001 2 9452 Old 4EBP1 0.066475
|
| 6 |
+
AGID00002 3 9456 Old 4EBP1_pS65 -0.22088
|
| 7 |
+
AGID00003 6 9459 Old 4EBP1_pT37T46 -0.535275
|
| 8 |
+
AGID00443 8 9455 Old 4EBP1_pT70 -0.0386295
|
| 9 |
+
AGID00120 985 4937 Old 53BP1 -1.28965
|
| 10 |
+
AGID00004 13 3661 Old ACC_pS79 -0.992215
|
| 11 |
+
AGID00005 14 1768-1/ab45174 Old ACC1 -0.60519
|
| 12 |
+
AGID00408 2372 3658 Set163 AceCS1 -0.5774854
|
| 13 |
+
AGID00473 1182 5335 Old ACETYLATUBULINLYS40 -1.7574
|
| 14 |
+
AGID00404 2367 9189 Set163 ACSL1 -0.618775
|
| 15 |
+
AGID02144 2450 PA5-27081 Old ACVRL1 0.29025
|
| 16 |
+
AGID00186 1198 ab88574 Old ADAR1 -0.1821765
|
| 17 |
+
AGID00146 1084 4691 Old AKT -0.581947
|
| 18 |
+
AGID00028 230 9271 Old AKT_pS473 -0.37214
|
| 19 |
+
AGID00170 1154 2965 Old AKT_pT308 -0.34776
|
| 20 |
+
AGID00316 1800 3063 Set163 Akt2 -0.1912699
|
| 21 |
+
AGID00347 2009 8599 Set163 Akt2_pS474 0.2288145
|
| 22 |
+
AGID02215 2577 ab195377 Set163 ALKBH5 -0.06617014
|
| 23 |
+
AGID00498 924 CA1030 Old ALPHACATENIN NA
|
| 24 |
+
AGID00287 1630 ABC80 Set163 Ambra1_pS52 -0.2664108
|
| 25 |
+
AGID00236 1351 ab129081 Set163 AMPK-a2_pS345 -0.08507002
|
| 26 |
+
AGID00006 39 2532 Old AMPKALPHA -0.34193
|
| 27 |
+
AGID00007 40 2535 Old AMPKALPHA_pT172 -0.132315
|
| 28 |
+
AGID00193 1208 610066 Old ANNEXIN1 0.24173
|
| 29 |
+
AGID00166 1142 610668 Old ANNEXINVII 0.21548
|
| 30 |
+
AGID00371 756 1852-1/ab52615 Old AR -0.63624
|
| 31 |
+
AGID00194 1217 4432 Old ARAF 0.707725
|
| 32 |
+
AGID02191 2507 PA5-39728 Old ARAF_pS299 0.21019
|
| 33 |
+
AGID00260 1053 sc-32761 Old ARID1A 0.1674575
|
| 34 |
+
AGID00264 1560 HPA029318 Old ASNS 0.617385
|
| 35 |
+
AGID00276 1612 3415 Set163 Atg3 0.553365
|
| 36 |
+
AGID00309 1775 13507 Set163 Atg4B 0.1848646
|
| 37 |
+
AGID00310 1776 12994 Set163 Atg5 0.751155
|
| 38 |
+
AGID00277 1613 8558 Set163 Atg7 0.2906651
|
| 39 |
+
AGID00242 1363 2873 Old ATM 0.479515
|
| 40 |
+
AGID02142 2447 13050 Set163 ATM_pS1981 0.2700899
|
| 41 |
+
AGID00217 1289 ab14748 Set163 ATP5A -0.2771956
|
| 42 |
+
AGID02145 2451 PA5-43776 Set163 ATP5H -0.4050899
|
| 43 |
+
AGID02150 2456 13934 Set163 ATR -0.113058
|
| 44 |
+
AGID00315 1795 ab178407 Set163 ATR_pS428 0.1001488
|
| 45 |
+
AGID00268 1569 ab97508 Set163 ATRX -0.7137676
|
| 46 |
+
AGID00391 2332 14475 Set163 Aurora-A 0.1998651
|
| 47 |
+
AGID00392 2333 2914 Set163 Aurora-ABC_pT288_pT232_pT198 0.09685508
|
| 48 |
+
AGID02195 2512 MA5-27890 Set163 Aurora-B 0.04666877
|
| 49 |
+
AGID00215 1271 8661 Old AXL 0.950295
|
| 50 |
+
AGID02143 2449 8457 Set163 b-Actin 0.3084148
|
| 51 |
+
AGID00179 1170 9565 Set163 b-Catenin_pT41_S45 -0.01043992
|
| 52 |
+
AGID00301 1725 14058 Set163 B7-H3 0.2931942
|
| 53 |
+
AGID00302 1726 14572 Set163 B7-H4 -0.05087026
|
| 54 |
+
AGID00008 63 9291 Old BAD_pS112 -0.0816545
|
| 55 |
+
AGID00009 71 1542-1/ab32371 Old BAK -0.376535
|
| 56 |
+
AGID00192 1207 sc-28383 Old BAP1C4 -0.50596
|
| 57 |
+
AGID00010 73 2772 Old BAX 0.64514
|
| 58 |
+
AGID00433 80 M0887 Old BCL2 0.59242
|
| 59 |
+
AGID00219 1299 PAB8528 Old BCL2A1 0.49782
|
| 60 |
+
AGID00012 84 1018-1 Old BCLXL 0.100129
|
| 61 |
+
AGID00377 87 sc-10086 Old BECLIN -0.090694
|
| 62 |
+
AGID00011 75 9562 Old BETACATENIN -1.205595
|
| 63 |
+
AGID00013 88 1008-1/ab32060 Old BID 0.1886675
|
| 64 |
+
AGID00180 90 1036-1/ab32158 Old BIM 0.350675
|
| 65 |
+
AGID00221 1311 610978 Set163 BiP-GRP78 0.2470395
|
| 66 |
+
AGID00373 2194 07-507 Set163 BMK1-Erk5_pT218_Y220 0.1688651
|
| 67 |
+
AGID00355 92 1647/ab33899 Old BRAF -0.63949
|
| 68 |
+
AGID00014 94 2696 Old BRAF_pS445 0.39323
|
| 69 |
+
AGID00445 761 9012 Old BRCA2 0.198094
|
| 70 |
+
AGID00266 1567 13440 Old BRD4 -0.51731
|
| 71 |
+
AGID00168 1146 2865 Set163 c-Abl_pY412 0.01100434
|
| 72 |
+
AGID00278 1615 3130 Set163 c-IAP2 0.5345
|
| 73 |
+
AGID00345 1990 5649 Old CA9 NA
|
| 74 |
+
AGID00265 1565 2862 Old CABL 0.30641
|
| 75 |
+
AGID00429 2407 2679 Set163 Calnexin 0.4710048
|
| 76 |
+
AGID00176 1165 9496 Set163 Caspase-8-cleaved 0.51723
|
| 77 |
+
AGID00623 111 9665 Old CASPASE3 0.08161
|
| 78 |
+
AGID00015 109 9491 Old CASPASE7CLEAVEDD198 3.29335
|
| 79 |
+
AGID00118 951 9746 Old CASPASE8 0.27828
|
| 80 |
+
AGID00537 935 551246 Old CASPASE9 NA
|
| 81 |
+
AGID00016 114 3238 Old CAVEOLIN1 -0.63303
|
| 82 |
+
AGID00358 2100 ab76000 Set163 CD134 0.1017736
|
| 83 |
+
AGID00303 1737 826701 Set163 CD171 1.721305
|
| 84 |
+
AGID00410 125 1632-1/ab78237 Old CD20 0.110595
|
| 85 |
+
AGID00220 1308 ab28340 Old CD26 0.33082
|
| 86 |
+
AGID00191 1206 610467 Set163 CD29 0.002464723
|
| 87 |
+
AGID00017 127 M0823 Old CD31 0.286965
|
| 88 |
+
AGID00369 2174 ab108403 Set163 CD38 1.152395
|
| 89 |
+
AGID00359 2104 ab133616 Set163 CD4 2.363364
|
| 90 |
+
AGID00411 1398 3570 Set163 CD44 1.05369
|
| 91 |
+
AGID00237 1352 M070101-2 Set163 CD45 1.317985
|
| 92 |
+
AGID00115 937 611016 Old CD49B -0.030788
|
| 93 |
+
AGID02171 2482 91882 Set163 CD86 -0.1652649
|
| 94 |
+
AGID00329 1873 4688 Set163 cdc25C -0.3131799
|
| 95 |
+
AGID00227 1332 4651 Set163 Cdc42 0.5829749
|
| 96 |
+
AGID00422 2396 3387 Set163 Cdc6 0.143175
|
| 97 |
+
AGID00501 1007 9112 Old CDK1 -0.214621
|
| 98 |
+
AGID00293 1658 ab32384 Set163 CDK1_pT14 -0.1578249
|
| 99 |
+
AGID00314 1783 4539 Old CDK1_pY15 0.04483
|
| 100 |
+
AGID00423 2397 8064 Set163 CDT1 0.3404596
|
| 101 |
+
AGID02101 2348 15102 Set163 cGAS 0.03197508
|
| 102 |
+
AGID00447 2410 13460 Set163 CHD1L -0.6102268
|
| 103 |
+
AGID00189 1203 2360 Old CHK1 0.49945
|
| 104 |
+
AGID00234 1348 ab79758 Old CHK1_pS296 0.308405
|
| 105 |
+
AGID00107 903 2348 Old CHK1_pS345 0.113347
|
| 106 |
+
AGID00018 146 3440 Old CHK2 -0.14063
|
| 107 |
+
AGID00019 147 2197 Old CHK2_pT68 0.051858
|
| 108 |
+
AGID00527 2078 4952 Old CIAP -0.0890455
|
| 109 |
+
AGID00350 2018 3793 Set163 CIITA 0.5354951
|
| 110 |
+
AGID00434 155 9164 Old CJUN_pS73 -0.316305
|
| 111 |
+
AGID00020 157 1522-1/ab32363 Old CKIT 0.1230995
|
| 112 |
+
AGID00400 852 NB100-91714 Old CLAUDIN7 -0.85005
|
| 113 |
+
AGID00466 726 3127 Old CMET 0.00093945
|
| 114 |
+
AGID00079 727 3129 Old CMET_pY1235 -0.028122
|
| 115 |
+
AGID00167 161 9402 Old CMYC -0.587595
|
| 116 |
+
AGID00292 1656 11130-1-AP Old COG3 -0.41647
|
| 117 |
+
AGID00021 171 sc-20649 Old COLLAGENVI 0.57647
|
| 118 |
+
AGID00141 1069 459230 Old COMPLEXIISUBUNIT30 NA
|
| 119 |
+
AGID00267 1568 3512 Set163 Connexin-43 -1.081935
|
| 120 |
+
AGID00269 1571 6434 Set163 Coup-TFII -0.03525492
|
| 121 |
+
AGID00150 1116 4850 Set163 Cox-IV 0.8605344
|
| 122 |
+
AGID00195 1218 4842 Set163 Cox2 -0.06763492
|
| 123 |
+
AGID00188 803 05-739 Old CRAF 0.048325
|
| 124 |
+
AGID00022 179 9427 Old CRAF_pS338 0.031922
|
| 125 |
+
AGID00023 181 9197 Set163 Creb 0.209684
|
| 126 |
+
AGID00393 2334 9198 Set163 CREB_pS133 0.5397672
|
| 127 |
+
AGID00365 2155 4980 Set163 CSK 0.334155
|
| 128 |
+
AGID00367 2160 9201 Set163 CtIP 0.1314697
|
| 129 |
+
AGID00536 2096 ab107198 Old CTLA4 NA
|
| 130 |
+
AGID00025 198 2936 Set163 Cyclin-D3 0.06755496
|
| 131 |
+
AGID00024 192 1495-1/ab32053 Old CYCLINB1 -0.72637
|
| 132 |
+
AGID00382 194 sc-718 Old CYCLIND1 0.068891
|
| 133 |
+
AGID00437 199 sc-25303 Old CYCLINE1 -0.269645
|
| 134 |
+
AGID00449 202 1142-1 Old CYCLINE2 -0.1877415
|
| 135 |
+
AGID00209 1257 ab110324 Set163 Cyclophilin-F 1.160245
|
| 136 |
+
AGID00247 1379 ab48389 Set163 D-a-Tubulin -0.2683799
|
| 137 |
+
AGID00308 1770 GTX10524 Set163 DAPK1_pS308 -0.427175
|
| 138 |
+
AGID00304 1744 ab51601 Set163 DAPK2 0.01959985
|
| 139 |
+
AGID00343 1980 6998 Set163 DDB-1 -0.05186499
|
| 140 |
+
AGID00427 2402 5583 Set163 DDR1 -0.3929307
|
| 141 |
+
AGID00428 2403 SAB4504671 Set163 DDR1_pY513 -0.04389495
|
| 142 |
+
AGID00532 1273 Bast Lab Old DIRAS3 0.1845685
|
| 143 |
+
AGID00104 891 ab76008 Old DJ1 0.41022
|
| 144 |
+
AGID02146 2452 4658 Set163 DM-Histone-H3 0.2133797
|
| 145 |
+
AGID00386 1397 ab32521 Set163 DM-K9-Histone-H3 -0.11063
|
| 146 |
+
AGID00352 2030 14649 Set163 DNA-Ligase-IV -0.6266902
|
| 147 |
+
AGID00407 2371 13609 Set163 DNA_POLG -0.04313501
|
| 148 |
+
AGID00399 2344 5032 Set163 DNMT1 -0.2939451
|
| 149 |
+
AGID00409 2373 5391 Set163 DRP1 0.09806351
|
| 150 |
+
AGID00253 1406 5149 Old DUSP4 -0.008805
|
| 151 |
+
AGID00334 1936 ab76310 Set163 DUSP6 0.2325347
|
| 152 |
+
AGID00116 940 3218 Old DVL3 -0.1730565
|
| 153 |
+
AGID00211 1261 sc-251 Old E2F1 NA
|
| 154 |
+
AGID00148 1099 3195 Old ECADHERIN -1.55285
|
| 155 |
+
AGID00135 1060 2332 Old EEF2 -0.09952
|
| 156 |
+
AGID00136 1061 3692 Old EEF2K -1.06435
|
| 157 |
+
AGID00152 1120 2232 Old EGFR -0.206695
|
| 158 |
+
AGID00450 217 2234 Old EGFR_pY1068 -0.26367
|
| 159 |
+
AGID00026 221 1124-1/ab32578 Old EGFR_pY1173 -0.0131815
|
| 160 |
+
AGID00078 722 9742 Old EIF4E 0.084713
|
| 161 |
+
AGID00328 1871 ab76256 Set163 eIF4E_pS209 -0.08762524
|
| 162 |
+
AGID00154 1124 2498 Old EIF4G -0.93188
|
| 163 |
+
AGID00027 228 9181 Set163 Elk1_pS383 -0.03275992
|
| 164 |
+
AGID00235 1350 M061329-2 Set163 EMA 1.755155
|
| 165 |
+
AGID00394 2337 3810 Set163 Enolase-1 0.9612798
|
| 166 |
+
AGID00395 2338 8171 Set163 Enolase-2 -0.2198399
|
| 167 |
+
AGID00196 1219 GTX629542 Old ENY2 -0.208519
|
| 168 |
+
AGID00438 1849 A302-024A Set163 EphA2 0.2264351
|
| 169 |
+
AGID00552 2422 6347 Set163 EphA2_pS897 0.07259508
|
| 170 |
+
AGID00553 2423 12677 Set163 EphA2_pY588 -0.04280342
|
| 171 |
+
AGID00075 693 556347 Old EPPK1 -1.60095
|
| 172 |
+
AGID00335 238 RM-9101 Old ERALPHA -0.685205
|
| 173 |
+
AGID00029 241 1091-1/ab32396 Old ERALPHA_pS118 -0.614025
|
| 174 |
+
AGID00240 247 MS-671 Old ERCC1 0.041195
|
| 175 |
+
AGID00239 1355 11331-1-AP Old ERCC5 0.4732195
|
| 176 |
+
AGID00484 249 sc-154 Old ERK2 -0.610285
|
| 177 |
+
AGID00372 2193 3552 Set163 Erk5 0.1837651
|
| 178 |
+
AGID00405 2369 13826 Set163 ERRalpha -0.3575
|
| 179 |
+
AGID00187 1200 A303-501A Old ETS1 1.0651
|
| 180 |
+
AGID00511 2492 2593 Set163 EVI1 -0.05105053
|
| 181 |
+
AGID00485 1284 4905 Old EZH2 NA
|
| 182 |
+
AGID00030 252 1700-1/ab40794 Set163 FAK -0.6160549
|
| 183 |
+
AGID02151 2457 8556 Set163 FAK_pY397 -0.1246515
|
| 184 |
+
AGID00171 1156 3180 Old FASN -0.852375
|
| 185 |
+
AGID00356 2085 500-P18/10775-082 Set163 FGF-basic 0.6712401
|
| 186 |
+
AGID00031 262 1574-1/ab45688 Old FIBRONECTIN 0.75232
|
| 187 |
+
AGID00339 1959 4403 Set163 FN14 0.1594301
|
| 188 |
+
AGID02152 2458 20459 Old FOXM1 -0.63934
|
| 189 |
+
AGID00378 269 9467 Old FOXO3A 0.089685
|
| 190 |
+
AGID02197 2515 orb6051 Old FOXO3A_pS318S321 0.128475
|
| 191 |
+
AGID02167 2475 PA5-64616 Set163 FRS2-alpha_pY196 -0.004904913
|
| 192 |
+
AGID02213 2575 ab124892 Set163 FTO -0.2952449
|
| 193 |
+
AGID02141 2446 12263 Old G6PD 0.394475
|
| 194 |
+
AGID00117 943 3239 Old GAB2 -0.491915
|
| 195 |
+
AGID00412 274 AM4300 Old GAPDH 0.32285
|
| 196 |
+
AGID00086 764 558686 Old GATA3 0.024259
|
| 197 |
+
AGID00383 1578 4253 Old GATA6 0.3193425
|
| 198 |
+
AGID00289 1634 12601-1-AP Set163 GCLC -1.00678
|
| 199 |
+
AGID00305 1745 ab124827 Set163 GCLM 0.07105508
|
| 200 |
+
AGID00212 1263 3305 Old GCN5L2 -0.176795
|
| 201 |
+
AGID00270 1579 3538 Set163 Gli1 -0.07472532
|
| 202 |
+
AGID00263 1520 ab69838 Set163 Gli3 -0.5476661
|
| 203 |
+
AGID00548 2530 3660 Set163 Glucocorticoid-Receptor 0.7081501
|
| 204 |
+
AGID00387 1617 12793 Set163 Glutamate-D1-2 -0.07361606
|
| 205 |
+
AGID00262 1491 ab156876 Set163 Glutaminase 0.338015
|
| 206 |
+
AGID00319 1807 4275 Set163 Granzyme-B 0.83198
|
| 207 |
+
AGID00368 2169 ab183737 Set163 GRB7 -0.5864457
|
| 208 |
+
AGID00396 2339 3593 Set163 Grp75 -0.42955
|
| 209 |
+
AGID00174 1163 9315 Set163 GSK-3B -0.7099858
|
| 210 |
+
AGID00502 1082 9336 Old GSK3_pS9 -0.658215
|
| 211 |
+
AGID00033 284 sc-7291 Old GSK3ALPHABETA -0.158095
|
| 212 |
+
AGID00034 285 9331 Old GSK3ALPHABETA_pS21S9 -0.217185
|
| 213 |
+
AGID00129 1035 3886 Old GYS NA
|
| 214 |
+
AGID00130 1036 3891 Old GYS_pS641 NA
|
| 215 |
+
AGID01354 1342 9718 Set163 H2AX_pS139 0.121805
|
| 216 |
+
AGID00363 1409 MA1-2022 Set163 H2AX_pS140 -0.09480998
|
| 217 |
+
AGID00131 1038 MS-325-P1 Old HER2 -1.26595
|
| 218 |
+
AGID00142 299 06-229 Old HER2_pY1248 -0.29869
|
| 219 |
+
AGID00110 911 sc-285 Old HER3 -0.6251
|
| 220 |
+
AGID00080 728 4791 Old HER3_pY1289 -0.04105715
|
| 221 |
+
AGID00103 890 2573 Old HEREGULIN 0.0516375
|
| 222 |
+
AGID00271 1582 11988 Set163 HES1 -0.3917652
|
| 223 |
+
AGID00397 2340 2024 Set163 Hexokinase-I -0.3224252
|
| 224 |
+
AGID00442 1023 2867 Set163 Hexokinase-II -1.044036
|
| 225 |
+
AGID00419 1402 610958 Old HIF1ALPHA NA
|
| 226 |
+
AGID00205 1250 ab1791 Set163 Histone-H3 0.4093949
|
| 227 |
+
AGID00398 2341 3377 Set163 Histone-H3_pS10 0.09610995
|
| 228 |
+
AGID00332 1901 ab128959 Set163 HLA-DQA1 2.186224
|
| 229 |
+
AGID00333 1902 14832-1-AP Set163 HMHA1 1.171025
|
| 230 |
+
AGID00035 321 2402 Set163 HSP27 0.12149
|
| 231 |
+
AGID00036 323 2401 Set163 HSP27_pS82 0.01899507
|
| 232 |
+
AGID00320 1808 12165 Set163 HSP60 0.1789799
|
| 233 |
+
AGID00037 325 4872 Old HSP70 0.811345
|
| 234 |
+
AGID00366 2158 86630 Set163 IDO 4.89289
|
| 235 |
+
AGID00197 1221 3024 Old IGF1R_pY1135Y1136 0.380655
|
| 236 |
+
AGID00038 335 3922 Old IGFBP2 -1.3732
|
| 237 |
+
AGID00090 793 611504 Set163 IGFBP3 -0.1503452
|
| 238 |
+
AGID00039 336 3027 Set163 IGFRb -1.135695
|
| 239 |
+
AGID00336 1949 12153 Set163 IL-6 0.2942398
|
| 240 |
+
AGID02221 2583 57145 Set163 IMP3 0.2732949
|
| 241 |
+
AGID02153 2459 14543 Old INPP4B -0.68508
|
| 242 |
+
AGID00272 1586 3025 Set163 IR-b -0.771725
|
| 243 |
+
AGID00519 2519 4302 Set163 IRF-3 1.23643
|
| 244 |
+
AGID00520 2520 4947 Set163 IRF-3_pS396 0.08537454
|
| 245 |
+
AGID00223 1316 sc-497 Old IRF1 0.13709
|
| 246 |
+
AGID00092 802 06-248 Old IRS1 -0.1788635
|
| 247 |
+
AGID00040 371 4502 Set163 IRS2 -0.8249754
|
| 248 |
+
AGID00250 1394 sc-13157 Old JAB1 0.101032
|
| 249 |
+
AGID00256 1413 ab109536 Set163 Jagged1 0.1972506
|
| 250 |
+
AGID00177 1166 3230 Old JAK2 0.34851
|
| 251 |
+
AGID00758 377 4671 Old JNK_pT183Y185 -0.026939
|
| 252 |
+
AGID02136 2439 PA5-28262 Old JNK2 0.140695
|
| 253 |
+
AGID00307 1757 ab10484 Set163 KAP1 -0.2620604
|
| 254 |
+
AGID00528 904 2180 Old KU80 -0.84462
|
| 255 |
+
AGID00375 2237 HPA028732 Set163 LAD1 0.3328501
|
| 256 |
+
AGID00290 1643 IHC-00439 Set163 Lasu1 -1.11334
|
| 257 |
+
AGID00279 1618 4108 Set163 LC3A-B 0.3729798
|
| 258 |
+
AGID00042 397 2752 Old LCK 1.61875
|
| 259 |
+
AGID00119 976 3582 Old LDHA NA
|
| 260 |
+
AGID00533 977 ab85319 Old LDHB NA
|
| 261 |
+
AGID00529 1477 3050 Old LKB1 0.1128315
|
| 262 |
+
AGID00244 1367 2568 Set163 LRP6_pS1490 -0.1372699
|
| 263 |
+
AGID00439 2424 2796 Set163 Lyn 1.00936
|
| 264 |
+
AGID02154 2460 4370 Old MAPK_pT202Y204 0.23014
|
| 265 |
+
AGID00198 1222 5453 Set163 Mcl-1 0.505024
|
| 266 |
+
AGID00288 1633 AB3314P Set163 MCT4 0.8266449
|
| 267 |
+
AGID00175 1164 3521 Set163 MDM2_pS166 -0.4478799
|
| 268 |
+
AGID00044 417 1235-1/ab32576 Old MEK1 0.1515075
|
| 269 |
+
AGID00143 1076 9154 Old MEK1_pS217S221 -0.0412725
|
| 270 |
+
AGID00201 1243 9125 Set163 MEK2 0.3313246
|
| 271 |
+
AGID00361 2118 ab51061 Set163 MelanA -0.08373994
|
| 272 |
+
AGID00362 2119 ab137078 Set163 Melanoma-gp100 0.368575
|
| 273 |
+
AGID00337 1951 12711 Set163 MERIT40 0.3200294
|
| 274 |
+
AGID00338 1952 12110 Set163 MERIT40_pS29 0.1666251
|
| 275 |
+
AGID02212 2574 ab195352 Set163 METTL3 -0.7268649
|
| 276 |
+
AGID00225 1323 sc-20121 Set163 MIF 0.03527508
|
| 277 |
+
AGID00137 1062 WH0054206M1 Old MIG6 0.16198
|
| 278 |
+
AGID00403 2117 ab20663 Set163 MITF 0.4719097
|
| 279 |
+
AGID00503 1067 ab3298 Old MITOCHONDRIA NA
|
| 280 |
+
AGID00321 1809 14739 Set163 Mitofusin-1 0.1937563
|
| 281 |
+
AGID00322 1810 11925 Set163 Mitofusin-2 -0.541255
|
| 282 |
+
AGID00389 2324 3515 Set163 MLH1 -0.06272506
|
| 283 |
+
AGID00312 1780 14993 Set163 MLKL 0.6730949
|
| 284 |
+
AGID00402 2359 MAB3328 Set163 MMP14 -0.218835
|
| 285 |
+
AGID00045 435 4022 Set163 MMP2 -0.1701378
|
| 286 |
+
AGID00122 1005 2195 Set163 Mnk1 0.6224139
|
| 287 |
+
AGID00331 1899 sc-377312 Set163 MR1 -0.0900801
|
| 288 |
+
AGID00273 1589 ab103319 Set163 MRAP -0.01476491
|
| 289 |
+
AGID00530 440 4847 Old MRE11 0.16306
|
| 290 |
+
AGID00390 905 2850 Old MSH2 -0.913265
|
| 291 |
+
AGID00138 1063 22030002 Old MSH6 -0.99817
|
| 292 |
+
AGID00299 1675 ab76148 Set163 MSI2 0.08501009
|
| 293 |
+
AGID00232 1344 ab14705 Set163 MTCO1 -0.5790466
|
| 294 |
+
AGID00046 444 2983 Old MTOR -0.3662
|
| 295 |
+
AGID00047 446 2971 Old MTOR_pS2448 0.135243
|
| 296 |
+
AGID00204 1247 H00009788-M01A Set163 MTSS1 0.06298991
|
| 297 |
+
AGID00401 1139 21370002 Old MYH11 -0.66808
|
| 298 |
+
AGID00291 1647 3403 Old MYOSINIIA 0.48977
|
| 299 |
+
AGID00173 1160 5026 Old MYOSINIIA_pS1943 0.353745
|
| 300 |
+
AGID00318 1803 4282 Set163 Myt1 0.02991483
|
| 301 |
+
AGID00216 1274 5795-1/ab129189 Old NAPSINA NA
|
| 302 |
+
AGID00418 452 4061 Old NCADHERIN 0.34333
|
| 303 |
+
AGID00156 1126 3217 Old NDRG1_pT346 -0.0656515
|
| 304 |
+
AGID02133 2436 PA5-45913 Set163 NDUFB4 0.1285851
|
| 305 |
+
AGID00134 1046 22710002 Old NF2 0.3058255
|
| 306 |
+
AGID00048 457 3033 Old NFKBP65_pS536 -0.35474
|
| 307 |
+
AGID02155 2461 3608 Old NOTCH1 -0.109603
|
| 308 |
+
AGID00340 1969 4147 Set163 Notch1-cleaved 0.05406984
|
| 309 |
+
AGID00087 767 sc-5593 Set163 Notch3 -0.03819494
|
| 310 |
+
AGID00258 1420 3187 Set163 NQO1 -0.6244001
|
| 311 |
+
AGID00162 1136 sc-31 Old NRAS 0.103065
|
| 312 |
+
AGID00257 1419 12721 Old NRF2 NA
|
| 313 |
+
AGID00297 1669 2750 Set163 Oct-4 -0.02766993
|
| 314 |
+
AGID00420 466 1712-1/ab40803 Old P16INK4A 0.095804
|
| 315 |
+
AGID00384 470 sc-6246 Old P21 -0.01859
|
| 316 |
+
AGID00105 897 1591-1/ab32034 Old P27 0.650575
|
| 317 |
+
AGID00096 842 AF1555 Old P27_pT157 0.0954145
|
| 318 |
+
AGID00099 878 ab64949 Old P27_pT198 0.0508745
|
| 319 |
+
AGID00181 1175 9228 Set163 p38-a 0.554084
|
| 320 |
+
AGID00098 479 9211 Old P38_pT180Y182 0.712655
|
| 321 |
+
AGID00049 478 9212 Old P38MAPK 0.509745
|
| 322 |
+
AGID00151 1119 4695 Set163 p44-42-MAPK -0.3896499
|
| 323 |
+
AGID00050 481 9282 Old P53 -0.212225
|
| 324 |
+
AGID00490 1187 610833 Old P62LCKLIGAND -0.206615
|
| 325 |
+
AGID00545 1415 ab53039 Old P63 NA
|
| 326 |
+
AGID00052 494 9205 Old P70S6K_pT389 0.242845
|
| 327 |
+
AGID00051 493 1494-1/ab32529 Old P70S6K1 -0.1205515
|
| 328 |
+
AGID00085 759 9347 Old P90RSK 0.320135
|
| 329 |
+
AGID00531 770 9344 Old P90RSK_pT359S363 0.001755
|
| 330 |
+
AGID00182 1178 9346 Set163 p90RSK_pT573 0.03523496
|
| 331 |
+
AGID00053 499 612024 Old PAI1 0.1880035
|
| 332 |
+
AGID00224 1322 HPA035895 Set163 PAICS -1.116015
|
| 333 |
+
AGID00323 1811 2602 Set163 PAK1 -0.07006534
|
| 334 |
+
AGID02199 2517 PA5-69540 Set163 PAK4 -0.58544
|
| 335 |
+
AGID00245 1370 4336-BPC-100 Set163 PAR -1.918535
|
| 336 |
+
AGID00374 2209 66564 Set163 PARG -0.1888552
|
| 337 |
+
AGID00370 1372 sc-7150 Old PARP1 0.733
|
| 338 |
+
AGID00468 501 9546 Old PARPCLEAVED -0.02805
|
| 339 |
+
AGID00274 1591 ab53715 Set163 Patched 0.04803505
|
| 340 |
+
AGID00513 2486 60433 Set163 PAX6 0.07530498
|
| 341 |
+
AGID00441 1621 9857 Set163 PAX8 0.6411587
|
| 342 |
+
AGID00054 504 2542 Old PAXILLIN -1.21065
|
| 343 |
+
AGID00055 509 2130 Old PCADHERIN 0.214665
|
| 344 |
+
AGID00248 511 ab29 Old PCNA -0.1180785
|
| 345 |
+
AGID00413 2095 43248 Old PDCD1 NA
|
| 346 |
+
AGID00094 816 600-401-965 Old PDCD4 -0.1088605
|
| 347 |
+
AGID00385 1225 3169 Set163 PDGFRB -0.1132499
|
| 348 |
+
AGID00210 1258 ab110332 Set163 PDH 0.01379893
|
| 349 |
+
AGID00324 1817 3205 Set163 PDHA1 -0.0008605926
|
| 350 |
+
AGID00280 1622 3820 Set163 PDHK1 0.1064351
|
| 351 |
+
AGID00056 515 3062 Old PDK1 0.34421
|
| 352 |
+
AGID00057 516 3061 Old PDK1_pS241 0.21475
|
| 353 |
+
AGID00300 1234 sc-19090 Old PDL1 0.99907
|
| 354 |
+
AGID00124 1017 2780 Old PEA15 0.559085
|
| 355 |
+
AGID00125 1018 44-836G Old PEA15_pS116 0.293065
|
| 356 |
+
AGID00440 2429 3192 Set163 PERK -0.2272155
|
| 357 |
+
AGID02207 2569 ab192876 Set163 PGM1 -0.1800956
|
| 358 |
+
AGID00281 1623 13428 Set163 PHGDH -0.03143554
|
| 359 |
+
AGID00425 2399 22789-1-AP Set163 PHLPP -0.2893249
|
| 360 |
+
AGID00226 1330 sc-376412 Set163 PI3K-p110-b 0.07496507
|
| 361 |
+
AGID00093 808 4255 Old PI3KP110ALPHA -0.03189945
|
| 362 |
+
AGID00058 523 06-195 Old PI3KP85 0.48293
|
| 363 |
+
AGID00296 1667 5675 Set163 PKA-a 0.6318499
|
| 364 |
+
AGID00259 1426 9375 Set163 PKC-a-b-II_pT638_T641 -0.1344549
|
| 365 |
+
AGID00172 529 05-154 Old PKCALPHA -0.351278
|
| 366 |
+
AGID00460 530 06-822 Old PKCALPHA_pS657 -0.3147945
|
| 367 |
+
AGID00114 932 07-875 Old PKCDELTA_pS664 0.148601
|
| 368 |
+
AGID00163 1137 9371 Old PKCPANBETAII_pS660 0.205265
|
| 369 |
+
AGID00126 1025 4053 Old PKM2 NA
|
| 370 |
+
AGID00512 2489 5690 Set163 PLC-gamma1 -1.387556
|
| 371 |
+
AGID02138 2441 GTX133463 Set163 PLC-gamma2_pY759 0.04964992
|
| 372 |
+
AGID00084 754 4513 Set163 PLK1 -0.501385
|
| 373 |
+
AGID00203 1246 22510002 Set163 PMS2 -0.3274749
|
| 374 |
+
AGID00207 1254 ab14734 Set163 Porin -0.2951449
|
| 375 |
+
AGID00381 549 1483-1/ab32085 Old PR -0.16854
|
| 376 |
+
AGID00081 738 AHO1031 Set163 PRAS40 0.1464351
|
| 377 |
+
AGID00082 739 44-1100G Old PRAS40_pT246 -0.392995
|
| 378 |
+
AGID00424 2398 OAAF05458 Set163 PRC1_pT481 -0.2785749
|
| 379 |
+
AGID00492 1205 HPA007730 Old PRDX1 0.83
|
| 380 |
+
AGID00190 1204 ab102739 Old PREX1 1.349
|
| 381 |
+
AGID00061 566 9552 Old PTEN 0.23883
|
| 382 |
+
AGID00364 2154 ab76942 Set163 PTPN12 0.1223949
|
| 383 |
+
AGID00218 1290 4976 Set163 Puma -0.04497991
|
| 384 |
+
AGID00200 1242 SAB2900066 Old PYGB NA
|
| 385 |
+
AGID00535 1494 ab61013 Old PYGL NA
|
| 386 |
+
AGID00202 1245 H00005837-M10 Old PYGM NA
|
| 387 |
+
AGID00275 1607 3291 Set163 Pyk2_pY402 0.2572595
|
| 388 |
+
AGID00145 1083 3539 Old RAB11 0.21891
|
| 389 |
+
AGID00169 1150 4314 Old RAB25 -0.677515
|
| 390 |
+
AGID00342 1979 24555 Set163 Rad23A 0
|
| 391 |
+
AGID00261 987 05-525 Old RAD50 -0.448105
|
| 392 |
+
AGID00360 579 NA71 Old RAD51 -0.095325
|
| 393 |
+
AGID00158 1128 2280 Old RAPTOR -0.1554455
|
| 394 |
+
AGID00059 552 9309 Old RB 0.042028
|
| 395 |
+
AGID00060 557 9308 Old RB_pS807S811 -0.4769
|
| 396 |
+
AGID00164 1138 21390002 Old RBM15 -0.40505
|
| 397 |
+
AGID00547 735 3221 Old RET_pY905 NA
|
| 398 |
+
AGID00097 847 MAB3426 Set163 Rheb 0.04251499
|
| 399 |
+
AGID00159 1129 2114 Old RICTOR -1.026985
|
| 400 |
+
AGID00160 1130 3806 Old RICTOR_pT1135 0.07331
|
| 401 |
+
AGID00282 1624 4926 Set163 RIP 0.02577004
|
| 402 |
+
AGID00283 1625 13526 Set163 RIP3 0.1090643
|
| 403 |
+
AGID00416 1368 2208 Set163 RPA32 0.5989101
|
| 404 |
+
AGID00246 1375 A300-245A Set163 RPA32_pS4_S8 -0.150806
|
| 405 |
+
AGID00341 1978 3388 Set163 RRM1 0.3107599
|
| 406 |
+
AGID00344 1981 PA5-27856 Set163 RRM2 -0.3645216
|
| 407 |
+
AGID00554 2425 8408 Set163 RSK1 0.3084272
|
| 408 |
+
AGID00353 2031 13018 Set163 S100A4 0.4114801
|
| 409 |
+
AGID00330 1874 2317 Old S6 0.19718
|
| 410 |
+
AGID00062 600 2211 Old S6_pS235S236 0.446655
|
| 411 |
+
AGID00063 601 2215 Old S6_pS240S244 0.18903
|
| 412 |
+
AGID00157 1127 sc-58420 Old SCD1 -0.254965
|
| 413 |
+
AGID00230 1339 11998 Set163 SDHA -0.1196949
|
| 414 |
+
AGID00294 1039 ab69836 Old SETD2 -0.054945
|
| 415 |
+
AGID00161 1131 32-4500 Old SF2 -0.125867
|
| 416 |
+
AGID02179 2495 3534 Set163 SFRP1 -0.06999095
|
| 417 |
+
AGID00431 2411 12103 Set163 SGK1 -0.01946566
|
| 418 |
+
AGID00430 2409 8156 Set163 SGK3 -0.15112
|
| 419 |
+
AGID02168 2476 bs-3413R Old SHC_pY317 -0.013705
|
| 420 |
+
AGID00376 2241 3397 Set163 SHP2 -0.1774352
|
| 421 |
+
AGID00183 1180 3751 Old SHP2_pY542 -0.031502
|
| 422 |
+
AGID02208 2570 ab8120 Set163 SIRP-alpha 0.6702194
|
| 423 |
+
AGID00222 1133 sc-99002 Old SLC1A5 0.385265
|
| 424 |
+
AGID00255 1411 sc-136891 Set163 Slfn11 -0.174615
|
| 425 |
+
AGID00064 610 2954 Old SMAC -0.171455
|
| 426 |
+
AGID00113 922 1649-1/ab33902 Old SMAD1 -0.0903645
|
| 427 |
+
AGID00091 796 1735-1/ab40854 Old SMAD3 -0.286185
|
| 428 |
+
AGID02160 2467 46535 Old SMAD4 -0.0563345
|
| 429 |
+
AGID00065 616 3895 Old SNAIL 0.0854967
|
| 430 |
+
AGID00325 1818 4266 Set163 SOD1 0.2359236
|
| 431 |
+
AGID00380 1328 13141 Set163 SOD2 1.55315
|
| 432 |
+
AGID00298 1670 2748 Set163 Sox2 -0.1703451
|
| 433 |
+
AGID00066 621 05-184 Old SRC 0.332954
|
| 434 |
+
AGID02157 2463 6943 Old SRC_pY416 0.6558
|
| 435 |
+
AGID00068 626 2105 Old SRC_pY527 0.3889
|
| 436 |
+
AGID00185 1197 4904 Set163 Stat3 -0.3566181
|
| 437 |
+
AGID00388 637 9131 Old STAT3_pY705 0.378555
|
| 438 |
+
AGID00069 638 1289-1/ab32043 Old STAT5ALPHA -0.19253
|
| 439 |
+
AGID00077 718 1972-1/ab52630 Old STATHMIN 0.108445
|
| 440 |
+
AGID00357 2099 13647 Set163 STING 0.5326401
|
| 441 |
+
AGID00128 1033 sc-1240 Old SYK 1.251525
|
| 442 |
+
AGID00070 646 05-348 Set163 Tau -0.6260699
|
| 443 |
+
AGID00327 777 2149 Old TAZ 0.230685
|
| 444 |
+
AGID00228 1333 7495 Set163 TFAM 0.4983588
|
| 445 |
+
AGID00165 1140 22500002 Old TFRC -1.34448
|
| 446 |
+
AGID00149 1107 S1711/ab137573 Old TIGAR 0.1003705
|
| 447 |
+
AGID00109 908 MS-224-P1 Old TRANSGLUTAMINASE 0.391025
|
| 448 |
+
AGID00406 2370 612344 Set163 TRAP1 -0.8704549
|
| 449 |
+
AGID00559 2537 PA5-34561 Set163 TRIM24 -0.3280622
|
| 450 |
+
AGID00306 1756 ab167154 Set163 TRIM25 -0.1285706
|
| 451 |
+
AGID00426 2400 PA5-52193 Set163 TRIP13 0.09421009
|
| 452 |
+
AGID00155 1125 4906 Old TSC1 -0.227345
|
| 453 |
+
AGID00144 1081 2044-1/ab76013 Old TTF1 NA
|
| 454 |
+
AGID00071 670 1613-1/ab32554 Old TUBERIN -0.662865
|
| 455 |
+
AGID02194 2511 ab109403 Old TUBERIN_pT1462 -0.117685
|
| 456 |
+
AGID00417 1842 ab173300 Set163 TUFM -0.4462049
|
| 457 |
+
AGID00238 1353 sc-81417 Set163 Twist 0.05132508
|
| 458 |
+
AGID00436 1080 5585 Set163 Tyro3 0.02961454
|
| 459 |
+
AGID00295 1662 5546 Set163 U-Histone-H2B 0.5722199
|
| 460 |
+
AGID00214 1270 HPA005651 Set163 UBAC1 0.1715699
|
| 461 |
+
AGID00351 2020 sc-136145 Set163 UBQLN4 0.1740251
|
| 462 |
+
AGID00213 1267 sc-271268 Set163 UGT1A 0.04127008
|
| 463 |
+
AGID00284 1626 6888 Set163 ULK1_pS757 -0.3227928
|
| 464 |
+
AGID00208 1256 MS304/ab14745 Set163 UQCRC2 -0.3296949
|
| 465 |
+
AGID00313 1781 13115 Set163 UVRAG 0.1541951
|
| 466 |
+
AGID00073 678 3112 Set163 VASP 1.057195
|
| 467 |
+
AGID00184 1181 2502 Set163 VAV1 1.308109
|
| 468 |
+
AGID00074 688 2479 Old VEGFR2 -0.41688
|
| 469 |
+
AGID00421 2394 68547 Set163 VHL 0.8511751
|
| 470 |
+
AGID00231 1343 SAB4200080 Set163 Vinculin -0.6906153
|
| 471 |
+
AGID00317 1802 4936 Set163 Wee1 -1.046461
|
| 472 |
+
AGID00354 2058 4910 Set163 Wee1_pS642 1.113535
|
| 473 |
+
AGID00285 1627 12124 Set163 WIPI1 -0.3406949
|
| 474 |
+
AGID00286 1628 8567 Set163 WIPI2 0.1406001
|
| 475 |
+
AGID02214 2576 ab195380 Set163 WTAP 0.5492644
|
| 476 |
+
AGID00133 1044 sc-32136 Old XBP1 0.142605
|
| 477 |
+
AGID00076 699 2042 Set163 XIAP -0.4227255
|
| 478 |
+
AGID00241 1359 sc-56813 Set163 XPA -0.6771999
|
| 479 |
+
AGID00349 1354 ab3299 Set163 XPF -0.1438675
|
| 480 |
+
AGID02137 2440 PA5-29359 Old XRCC1 0.0268781
|
| 481 |
+
AGID00088 780 sc-15407 Old YAP -0.3205575
|
| 482 |
+
AGID00089 782 4911 Old YAP_pS127 -0.681555
|
| 483 |
+
AGID00504 700 17250002 Old YB1 -0.050685
|
| 484 |
+
AGID00095 835 2900 Old YB1_pS102 -0.222265
|
| 485 |
+
AGID02217 2579 ab220163 Set163 YTHDF2 -0.1538699
|
| 486 |
+
AGID02210 2572 ab220161 Set163 YTHDF3 -0.202805
|
| 487 |
+
AGID00326 1828 2705 Set163 ZAP-70 2.154878
|
| 488 |
+
AGID00432 2244 sc-25388 Set163 ZEB1 0.1261334
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128-01Z-00-DX1.4E6BFFBC-87AD-4ED4-959D-FEB5545400BE_mask.png
ADDED
|
Git LFS Details
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-AO-A128.03526CFD-0C3E-4ACB-AB26-3E0B0ED0ADA2.PDF
ADDED
|
@@ -0,0 +1,3 @@
|
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|
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|
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|
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|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:681369d6a01f9ef3130131ef6ce3f3ec9d071f1eeb3e0e9bec6ab6f5bab99d90
|
| 3 |
+
size 331792
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.absolute_liftover.gene_level_copy_number.v36.tsv
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat2.allelic_specific.seg.txt
ADDED
|
@@ -0,0 +1,117 @@
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|
|
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|
|
|
|
|
|
|
|
|
| 1 |
+
GDC_Aliquot Chromosome Start End Copy_Number Major_Copy_Number Minor_Copy_Number
|
| 2 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 62920 25256850 4 3 1
|
| 3 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 25266637 25336819 0 0 0
|
| 4 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 25336853 30818891 4 3 1
|
| 5 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 30819761 33102692 2 1 1
|
| 6 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 33104527 72245386 4 3 1
|
| 7 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 72245505 73192824 6 4 2
|
| 8 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 73198926 121705338 4 3 1
|
| 9 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 143541857 248930189 6 3 3
|
| 10 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr2 12784 113139780 2 2 0
|
| 11 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr2 113140737 113352459 6 6 0
|
| 12 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr2 113352477 242147305 2 2 0
|
| 13 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 20930 5362250 3 3 0
|
| 14 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 5362283 5393278 0 0 0
|
| 15 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 5394391 76405520 3 3 0
|
| 16 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 76407423 95948058 5 4 1
|
| 17 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 95949340 96097299 1 1 0
|
| 18 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 96100171 133272650 4 3 1
|
| 19 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 133274225 162790480 5 4 1
|
| 20 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 162794869 162908207 15 15 0
|
| 21 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 162908784 198169247 5 4 1
|
| 22 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 68929 10208766 2 2 0
|
| 23 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 10212536 10229874 0 0 0
|
| 24 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 10232590 93336425 2 2 0
|
| 25 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 93336649 96004734 3 3 0
|
| 26 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 96004759 190106768 2 2 0
|
| 27 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 15532 45715651 3 3 0
|
| 28 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 45716107 57865313 2 2 0
|
| 29 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 57876251 57967190 0 0 0
|
| 30 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 57972823 181363319 2 2 0
|
| 31 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 149661 1151379 2 1 1
|
| 32 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 1151603 1856280 3 2 1
|
| 33 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 1856726 31478769 2 1 1
|
| 34 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 31478933 32639579 3 2 1
|
| 35 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 32641650 170741917 2 1 1
|
| 36 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 43259 24094363 5 4 1
|
| 37 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 24094829 24110460 10 8 2
|
| 38 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 24111478 38248326 5 4 1
|
| 39 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 38251092 38319355 1 1 0
|
| 40 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 38322471 40788398 5 4 1
|
| 41 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 40791871 57307679 3 2 1
|
| 42 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 57308413 63210898 4 3 1
|
| 43 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 63211214 85921179 6 3 3
|
| 44 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 85926202 86998314 5 3 2
|
| 45 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 86998363 107240520 6 3 3
|
| 46 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 107246486 108527370 3 2 1
|
| 47 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 108528818 110696876 4 2 2
|
| 48 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 110698404 126124157 2 1 1
|
| 49 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 126124688 142323410 3 2 1
|
| 50 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 142323575 142867473 2 2 0
|
| 51 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 142867910 159334314 3 2 1
|
| 52 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 81254 37416730 2 2 0
|
| 53 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 37417498 39761031 4 2 2
|
| 54 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 39761197 46261056 7 5 2
|
| 55 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 46261373 140965990 6 3 3
|
| 56 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 140966662 141269284 7 5 2
|
| 57 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 141273466 145072769 5 3 2
|
| 58 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 46587 3125664 4 4 0
|
| 59 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 3125843 3137952 1 1 0
|
| 60 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 3138642 14878096 4 4 0
|
| 61 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 14879270 17631808 3 3 0
|
| 62 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 17631984 17636653 0 0 0
|
| 63 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 17636676 29949676 4 4 0
|
| 64 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 29951546 41741113 3 3 0
|
| 65 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 60863881 93998615 4 4 0
|
| 66 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 93999986 109654267 2 2 0
|
| 67 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 109656631 132511292 4 4 0
|
| 68 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 132513353 138200944 3 3 0
|
| 69 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 45792 26933028 4 4 0
|
| 70 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 26933116 26955055 9 7 2
|
| 71 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 26957892 87198803 4 4 0
|
| 72 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 87210838 95105427 2 2 0
|
| 73 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 95105451 95109349 22 22 0
|
| 74 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 95109949 97960340 2 2 0
|
| 75 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 97961048 110682245 4 4 0
|
| 76 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 110682279 117492378 2 2 0
|
| 77 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 117494165 126538373 4 4 0
|
| 78 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 126538511 126542209 0 0 0
|
| 79 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 126542689 127005876 5 5 0
|
| 80 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 127006624 130871355 4 4 0
|
| 81 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 130871709 130902702 1 1 0
|
| 82 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 130905383 133654968 3 3 0
|
| 83 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr11 198510 4949137 2 2 0
|
| 84 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr11 4950775 4955042 0 0 0
|
| 85 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr11 4955781 135074876 2 2 0
|
| 86 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr12 51460 78406275 2 2 0
|
| 87 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr12 78408036 78515718 0 0 0
|
| 88 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr12 78515872 133201603 2 2 0
|
| 89 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr13 18452809 89364571 3 2 1
|
| 90 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr13 89365748 114342922 2 2 0
|
| 91 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 18239283 21783809 2 2 0
|
| 92 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 21784100 22509792 0 0 0
|
| 93 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 22514241 106877229 2 2 0
|
| 94 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 19811075 32639703 3 3 0
|
| 95 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 32639897 51698050 1 1 0
|
| 96 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 51700229 52884453 2 2 0
|
| 97 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 52885292 56978059 1 1 0
|
| 98 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 56978971 101928837 2 2 0
|
| 99 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr16 10777 83817468 2 2 0
|
| 100 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr16 83818595 83829031 7 5 2
|
| 101 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr16 83830329 90096867 2 2 0
|
| 102 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr17 150733 83091923 2 2 0
|
| 103 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr18 48133 80257174 2 1 1
|
| 104 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 90910 28006184 4 2 2
|
| 105 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 28006983 37678012 2 1 1
|
| 106 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 37678454 58586487 5 4 1
|
| 107 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr20 80664 64324800 4 2 2
|
| 108 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 12973348 21094063 3 2 1
|
| 109 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 21094423 23294654 4 2 2
|
| 110 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 23295534 23312757 8 4 4
|
| 111 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 23312928 46677045 4 2 2
|
| 112 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr22 16392123 25305524 2 2 0
|
| 113 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr22 25308263 25526380 7 6 1
|
| 114 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr22 25526581 50796027 2 2 0
|
| 115 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chrX 251810 140835517 4 2 2
|
| 116 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chrX 140835997 156004181 2 2 0
|
| 117 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chrY 2782397 56872112 0 0 0
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat3.allelic_specific.seg.txt
ADDED
|
@@ -0,0 +1,53 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
GDC_Aliquot Chromosome Start End Copy_Number Major_Copy_Number Minor_Copy_Number
|
| 2 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 61735 121741181 4 3 1
|
| 3 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr1 143285278 248930189 6 3 3
|
| 4 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr2 12784 242147305 2 2 0
|
| 5 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 18667 76350048 3 3 0
|
| 6 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr3 76350248 198169247 5 4 1
|
| 7 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr4 12281 190106768 2 2 0
|
| 8 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 15532 45731490 3 3 0
|
| 9 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 45734981 57865313 2 2 0
|
| 10 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 57876251 57967190 0 0 0
|
| 11 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr5 57972823 181363319 2 2 0
|
| 12 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr6 149661 170741917 2 1 1
|
| 13 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 43259 40799191 5 4 1
|
| 14 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 40799710 64124226 3 2 1
|
| 15 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 64127803 107211323 6 3 3
|
| 16 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 107211758 110706108 3 2 1
|
| 17 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 110706926 126159257 2 1 1
|
| 18 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr7 126163693 159334314 3 2 1
|
| 19 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 81254 37490627 2 2 0
|
| 20 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 37493896 39747789 5 3 2
|
| 21 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 39748245 43565674 7 5 2
|
| 22 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr8 43565689 145072769 6 3 3
|
| 23 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 46587 94054984 4 4 0
|
| 24 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 94055681 109645856 2 2 0
|
| 25 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr9 109645929 138200944 4 4 0
|
| 26 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 26823 87215763 4 4 0
|
| 27 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 87216840 97917337 2 2 0
|
| 28 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 97919387 110680989 3 3 0
|
| 29 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 110682245 117494227 2 2 0
|
| 30 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr10 117496184 133769379 3 3 0
|
| 31 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr11 198572 135074876 2 2 0
|
| 32 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr12 51460 133201603 2 2 0
|
| 33 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr13 18452809 89397085 2 1 1
|
| 34 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr13 89397686 114342922 2 2 0
|
| 35 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 18225647 22118209 2 2 0
|
| 36 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 22118439 22502607 1 1 0
|
| 37 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr14 22505269 106877229 2 2 0
|
| 38 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 19811075 32639703 2 2 0
|
| 39 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 32639897 56614224 1 1 0
|
| 40 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr15 56614612 101928837 2 2 0
|
| 41 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr16 10777 90221127 2 2 0
|
| 42 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr17 150733 83090856 2 2 0
|
| 43 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr18 48133 80257174 2 1 1
|
| 44 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 90910 27687746 4 2 2
|
| 45 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 27690019 37600882 2 1 1
|
| 46 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr19 37601268 58586487 5 4 1
|
| 47 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr20 80664 64324800 4 2 2
|
| 48 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 10336543 15690060 3 2 1
|
| 49 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 15691238 21094063 2 1 1
|
| 50 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr21 21094423 46677045 4 2 2
|
| 51 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chr22 15294545 50796027 2 2 0
|
| 52 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chrX 251810 140776978 3 2 1
|
| 53 |
+
e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec chrX 140779147 156004181 2 2 0
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat3.gene_level_copy_number.v36.tsv
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_ed9b710f-c83f-4ab6-8cef-d0cc9f8aeeb4.wxs.aliquot_ensemble_masked.maf.gz
ADDED
|
@@ -0,0 +1,3 @@
|
|
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|
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|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:46814127b971d7c77c7e24f8647db537106a0ca0d881da6ecdd1dbc804698de4
|
| 3 |
+
size 356668
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_biospecimen.TCGA-AO-A128.xml
ADDED
|
@@ -0,0 +1,575 @@
|
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|
| 1 |
+
<?xml version="1.0" encoding="UTF-8"?>
|
| 2 |
+
<bio:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/biospecimen/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/biospecimen/2.7/TCGA_BCR.Biospecimen.xsd" schemaVersion="2.7" xmlns:bio="http://tcga.nci/bcr/xml/biospecimen/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:bio_shared="http://tcga.nci/bcr/xml/biospecimen/shared/2.7">
|
| 3 |
+
<admin:admin>
|
| 4 |
+
<admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
|
| 5 |
+
<admin:file_uuid xsd_ver="2.6">1DC58002-5A61-4810-8A65-2C29A9174B54</admin:file_uuid>
|
| 6 |
+
<admin:batch_number xsd_ver="1.17">80.85.0</admin:batch_number>
|
| 7 |
+
<admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
|
| 8 |
+
<admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
|
| 9 |
+
<admin:day_of_dcc_upload xsd_ver="1.17">18</admin:day_of_dcc_upload>
|
| 10 |
+
<admin:month_of_dcc_upload xsd_ver="1.17">5</admin:month_of_dcc_upload>
|
| 11 |
+
<admin:year_of_dcc_upload xsd_ver="1.17">2022</admin:year_of_dcc_upload>
|
| 12 |
+
<admin:program xsd_ver="2.7">TCGA</admin:program>
|
| 13 |
+
<admin:dbgap_registration_code xsd_ver="2.7">000178</admin:dbgap_registration_code>
|
| 14 |
+
</admin:admin>
|
| 15 |
+
<bio:patient>
|
| 16 |
+
<admin:additional_studies/>
|
| 17 |
+
<shared:bcr_patient_barcode cde="2003301" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128</shared:bcr_patient_barcode>
|
| 18 |
+
<shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">016caf42-4e19-4444-ab5d-6cf1e76c4afa</shared:bcr_patient_uuid>
|
| 19 |
+
<shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">AO</shared:tissue_source_site>
|
| 20 |
+
<shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A128</shared:patient_id>
|
| 21 |
+
<shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Completed" owner="">FEMALE</shared:gender>
|
| 22 |
+
<bio:days_to_index precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">0</bio:days_to_index>
|
| 23 |
+
<bio:bcr_canonical_check>
|
| 24 |
+
<bio:bcr_patient_canonical_status cde="" xsd_ver="2.6" procurement_status="Completed" owner="">Canonical</bio:bcr_patient_canonical_status>
|
| 25 |
+
</bio:bcr_canonical_check>
|
| 26 |
+
<bio:samples>
|
| 27 |
+
<bio:sample>
|
| 28 |
+
<admin:additional_studies/>
|
| 29 |
+
<bio:specimen_fraction_ordinal cde="" xsd_ver="2.7" procurement_status="Not Available" owner=""/>
|
| 30 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:sample_type_id>
|
| 31 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
|
| 32 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 33 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Primary Tumor</bio:sample_type>
|
| 34 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 35 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 36 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 37 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">590</bio:initial_weight>
|
| 38 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 39 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 40 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">true</bio:oct_embedded>
|
| 41 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 42 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 43 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 44 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 45 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">2960</bio:days_to_collection>
|
| 46 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 47 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 48 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A</bio:bcr_sample_barcode>
|
| 49 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">163000c7-0633-4d89-a84f-f487517248db</bio:bcr_sample_uuid>
|
| 50 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 51 |
+
<bio:portions>
|
| 52 |
+
<bio:shipment_portion>
|
| 53 |
+
<admin:additional_studies/>
|
| 54 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">21</bio:portion_number>
|
| 55 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</bio:portion_sequence>
|
| 56 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A13E</bio:plate_id>
|
| 57 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">20</bio:center_id>
|
| 58 |
+
<bio:shipment_portion_day_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">22</bio:shipment_portion_day_of_shipment>
|
| 59 |
+
<bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">3</bio:shipment_portion_month_of_shipment>
|
| 60 |
+
<bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2011</bio:shipment_portion_year_of_shipment>
|
| 61 |
+
<bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-AO-A128-01A-21-A13E-20</bio:shipment_portion_bcr_aliquot_barcode>
|
| 62 |
+
<bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">b629bd13-8d7f-4bff-aa80-08dec4b64d8e</bio:bcr_shipment_portion_uuid>
|
| 63 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 64 |
+
</bio:shipment_portion>
|
| 65 |
+
<bio:portion>
|
| 66 |
+
<admin:additional_studies/>
|
| 67 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
|
| 68 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
|
| 69 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">24</bio:day_of_creation>
|
| 70 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:month_of_creation>
|
| 71 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
|
| 72 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
|
| 73 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11</bio:bcr_portion_barcode>
|
| 74 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">dcdb6e6e-0d79-4fa3-90ff-2e3123be59b8</bio:bcr_portion_uuid>
|
| 75 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 76 |
+
<bio:analytes>
|
| 77 |
+
<bio:analyte>
|
| 78 |
+
<admin:additional_studies/>
|
| 79 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 80 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 81 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 82 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 83 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.05</bio:a260_a280_ratio>
|
| 84 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 85 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 86 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D</bio:bcr_analyte_barcode>
|
| 87 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b2cf3360-18fa-40b4-9e59-bc4c968649f7</bio:bcr_analyte_uuid>
|
| 88 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 89 |
+
<bio:aliquots>
|
| 90 |
+
<bio:aliquot>
|
| 91 |
+
<admin:additional_studies/>
|
| 92 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10K</bio:plate_id>
|
| 93 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 94 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 95 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 96 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 97 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D-A10K-02</bio:bcr_aliquot_barcode>
|
| 98 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ebd3c7e2-4590-43fc-bea6-1efc889ee807</bio:bcr_aliquot_uuid>
|
| 99 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 100 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 101 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 102 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 103 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 104 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474529</bio:biospecimen_barcode_bottom>
|
| 105 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 106 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 107 |
+
</bio:aliquot>
|
| 108 |
+
<bio:aliquot>
|
| 109 |
+
<admin:additional_studies/>
|
| 110 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10L</bio:plate_id>
|
| 111 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 112 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 113 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 114 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 115 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D-A10L-01</bio:bcr_aliquot_barcode>
|
| 116 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec</bio:bcr_aliquot_uuid>
|
| 117 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 118 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 119 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 120 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 121 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 122 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100473569</bio:biospecimen_barcode_bottom>
|
| 123 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 124 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 125 |
+
</bio:aliquot>
|
| 126 |
+
<bio:aliquot>
|
| 127 |
+
<admin:additional_studies/>
|
| 128 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10M</bio:plate_id>
|
| 129 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 130 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 131 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 132 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 133 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D-A10M-09</bio:bcr_aliquot_barcode>
|
| 134 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">46ae2a1c-e694-4a86-b127-e6fbaa676b69</bio:bcr_aliquot_uuid>
|
| 135 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 136 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 137 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.00</bio:volume>
|
| 138 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 139 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 140 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474433</bio:biospecimen_barcode_bottom>
|
| 141 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 142 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 143 |
+
</bio:aliquot>
|
| 144 |
+
<bio:aliquot>
|
| 145 |
+
<admin:additional_studies/>
|
| 146 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10N</bio:plate_id>
|
| 147 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
|
| 148 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 149 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 150 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 151 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D-A10N-05</bio:bcr_aliquot_barcode>
|
| 152 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0673680d-58ed-4098-8a7c-233f49209faa</bio:bcr_aliquot_uuid>
|
| 153 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 154 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 155 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 156 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 157 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 158 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099015809</bio:biospecimen_barcode_bottom>
|
| 159 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 160 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 161 |
+
</bio:aliquot>
|
| 162 |
+
<bio:aliquot>
|
| 163 |
+
<admin:additional_studies/>
|
| 164 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A894</bio:plate_id>
|
| 165 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
|
| 166 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">23</bio:day_of_shipment>
|
| 167 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_shipment>
|
| 168 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2022</bio:year_of_shipment>
|
| 169 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11D-A894-36</bio:bcr_aliquot_barcode>
|
| 170 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">FC37FEE1-ABA5-42F8-BDEB-DCE1EED0E33F</bio:bcr_aliquot_uuid>
|
| 171 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 172 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">8.00</bio:quantity>
|
| 173 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">50.00</bio:volume>
|
| 174 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">G</bio:plate_row>
|
| 175 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6</bio:plate_column>
|
| 176 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3528621390</bio:biospecimen_barcode_bottom>
|
| 177 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 178 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 179 |
+
</bio:aliquot>
|
| 180 |
+
</bio:aliquots>
|
| 181 |
+
<bio:protocols>
|
| 182 |
+
<bio:protocol>
|
| 183 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
|
| 184 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 185 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 186 |
+
</bio:protocol>
|
| 187 |
+
</bio:protocols>
|
| 188 |
+
<bio:dna>
|
| 189 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 190 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 191 |
+
</bio:dna>
|
| 192 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 193 |
+
</bio:analyte>
|
| 194 |
+
<bio:analyte>
|
| 195 |
+
<admin:additional_studies/>
|
| 196 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 197 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
|
| 198 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
|
| 199 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 200 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.85</bio:a260_a280_ratio>
|
| 201 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 202 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 203 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11R</bio:bcr_analyte_barcode>
|
| 204 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b5f4fdc9-9a41-452f-9f57-85e4d5ebb435</bio:bcr_analyte_uuid>
|
| 205 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 206 |
+
<bio:aliquots>
|
| 207 |
+
<bio:aliquot>
|
| 208 |
+
<admin:additional_studies/>
|
| 209 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10I</bio:plate_id>
|
| 210 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
|
| 211 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 212 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 213 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 214 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11R-A10I-13</bio:bcr_aliquot_barcode>
|
| 215 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">942b2eea-ca36-4777-987f-893ac21ad53b</bio:bcr_aliquot_uuid>
|
| 216 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 217 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.20</bio:quantity>
|
| 218 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
|
| 219 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 220 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 221 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100472904</bio:biospecimen_barcode_bottom>
|
| 222 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 223 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 224 |
+
</bio:aliquot>
|
| 225 |
+
<bio:aliquot>
|
| 226 |
+
<admin:additional_studies/>
|
| 227 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10J</bio:plate_id>
|
| 228 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
|
| 229 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 230 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 231 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 232 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11R-A10J-07</bio:bcr_aliquot_barcode>
|
| 233 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4a93eaee-d821-4640-a441-255008aaf3b4</bio:bcr_aliquot_uuid>
|
| 234 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 235 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
|
| 236 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
|
| 237 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 238 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 239 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100472897</bio:biospecimen_barcode_bottom>
|
| 240 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 241 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 242 |
+
</bio:aliquot>
|
| 243 |
+
</bio:aliquots>
|
| 244 |
+
<bio:protocols>
|
| 245 |
+
<bio:protocol>
|
| 246 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Allprep RNA Extraction</bio:experimental_protocol_type>
|
| 247 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 248 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 249 |
+
</bio:protocol>
|
| 250 |
+
</bio:protocols>
|
| 251 |
+
<bio:rna>
|
| 252 |
+
<bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.00</bio:ratio_28s_18s>
|
| 253 |
+
<bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">9.90</bio:rinvalue>
|
| 254 |
+
</bio:rna>
|
| 255 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 256 |
+
</bio:analyte>
|
| 257 |
+
<bio:analyte>
|
| 258 |
+
<admin:additional_studies/>
|
| 259 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
|
| 260 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 261 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 262 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 263 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 264 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 265 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 266 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11W</bio:bcr_analyte_barcode>
|
| 267 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">180FA52F-7900-4A9E-B8B2-E6F23DE0E2C3</bio:bcr_analyte_uuid>
|
| 268 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 269 |
+
<bio:aliquots>
|
| 270 |
+
<bio:aliquot>
|
| 271 |
+
<admin:additional_studies/>
|
| 272 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A124</bio:plate_id>
|
| 273 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 274 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">24</bio:day_of_shipment>
|
| 275 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">01</bio:month_of_shipment>
|
| 276 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 277 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-11W-A124-09</bio:bcr_aliquot_barcode>
|
| 278 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8d97b796-96e2-4505-a2f2-4bbea80cbdaa</bio:bcr_aliquot_uuid>
|
| 279 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 280 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 281 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 282 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 283 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3</bio:plate_column>
|
| 284 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099019113</bio:biospecimen_barcode_bottom>
|
| 285 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 286 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 287 |
+
</bio:aliquot>
|
| 288 |
+
</bio:aliquots>
|
| 289 |
+
<bio:protocols>
|
| 290 |
+
<bio:protocol>
|
| 291 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 292 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 293 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 294 |
+
</bio:protocol>
|
| 295 |
+
</bio:protocols>
|
| 296 |
+
<bio:dna>
|
| 297 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 298 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 299 |
+
</bio:dna>
|
| 300 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 301 |
+
</bio:analyte>
|
| 302 |
+
</bio:analytes>
|
| 303 |
+
<bio:slides>
|
| 304 |
+
<bio:slide>
|
| 305 |
+
<admin:additional_studies/>
|
| 306 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">BOTTOM</bio:section_location>
|
| 307 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 308 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">82</bio:percent_tumor_cells>
|
| 309 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">90</bio:percent_tumor_nuclei>
|
| 310 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_normal_cells>
|
| 311 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
|
| 312 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8</bio:percent_stromal_cells>
|
| 313 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 314 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">3</bio:percent_lymphocyte_infiltration>
|
| 315 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 316 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 317 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 318 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 319 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-01-BSA</shared:bcr_slide_barcode>
|
| 320 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9019856f-fe50-42af-8588-b73395fc0165</shared:bcr_slide_uuid>
|
| 321 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A128-01A-01-BSA.9019856f-fe50-42af-8588-b73395fc0165.svs</shared:image_file_name>
|
| 322 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 323 |
+
</bio:slide>
|
| 324 |
+
<bio:slide>
|
| 325 |
+
<admin:additional_studies/>
|
| 326 |
+
<bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
|
| 327 |
+
<bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 328 |
+
<bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">93</bio:percent_tumor_cells>
|
| 329 |
+
<bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">93</bio:percent_tumor_nuclei>
|
| 330 |
+
<bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_normal_cells>
|
| 331 |
+
<bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_necrosis>
|
| 332 |
+
<bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">6</bio:percent_stromal_cells>
|
| 333 |
+
<bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 334 |
+
<bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">5</bio:percent_lymphocyte_infiltration>
|
| 335 |
+
<bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
|
| 336 |
+
<bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 337 |
+
<bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
|
| 338 |
+
<bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 339 |
+
<shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-01A-01-TSA</shared:bcr_slide_barcode>
|
| 340 |
+
<shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6bd59663-0c98-4fd6-8b4a-87b47541e08b</shared:bcr_slide_uuid>
|
| 341 |
+
<shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A128-01A-01-TSA.6bd59663-0c98-4fd6-8b4a-87b47541e08b.svs</shared:image_file_name>
|
| 342 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 343 |
+
</bio:slide>
|
| 344 |
+
</bio:slides>
|
| 345 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 346 |
+
</bio:portion>
|
| 347 |
+
</bio:portions>
|
| 348 |
+
<bio:tumor_pathology/>
|
| 349 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 350 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 351 |
+
<shared:days_to_sample_procurement cde="3288495" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 352 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">03526CFD-0C3E-4ACB-AB26-3E0B0ED0ADA2</bio:pathology_report_uuid>
|
| 353 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A128.03526CFD-0C3E-4ACB-AB26-3E0B0ED0ADA2.pdf</bio:pathology_report_file_name>
|
| 354 |
+
<bio:diagnostic_slides>
|
| 355 |
+
<admin:additional_studies/>
|
| 356 |
+
<bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">4E6BFFBC-87AD-4ED4-959D-FEB5545400BE</bio:ffpe_slide_uuid>
|
| 357 |
+
</bio:diagnostic_slides>
|
| 358 |
+
</bio:sample>
|
| 359 |
+
<bio:sample>
|
| 360 |
+
<admin:additional_studies/>
|
| 361 |
+
<bio:specimen_fraction_ordinal cde="" xsd_ver="2.7" procurement_status="Not Available" owner=""/>
|
| 362 |
+
<bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">10</bio:sample_type_id>
|
| 363 |
+
<bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
|
| 364 |
+
<bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 365 |
+
<bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Blood Derived Normal</bio:sample_type>
|
| 366 |
+
<bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 367 |
+
<bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 368 |
+
<bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 369 |
+
<bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 370 |
+
<bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 371 |
+
<bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 372 |
+
<bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
|
| 373 |
+
<bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 374 |
+
<bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 375 |
+
<bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 376 |
+
<bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 377 |
+
<bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">2960</bio:days_to_collection>
|
| 378 |
+
<bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 379 |
+
<bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 380 |
+
<bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A</bio:bcr_sample_barcode>
|
| 381 |
+
<bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">32a8bc28-a2f9-4420-9992-9e1151b27c36</bio:bcr_sample_uuid>
|
| 382 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 383 |
+
<bio:portions>
|
| 384 |
+
<bio:portion>
|
| 385 |
+
<admin:additional_studies/>
|
| 386 |
+
<bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:portion_number>
|
| 387 |
+
<bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
|
| 388 |
+
<bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">17</bio:day_of_creation>
|
| 389 |
+
<bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:month_of_creation>
|
| 390 |
+
<bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
|
| 391 |
+
<bio:weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 392 |
+
<bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01</bio:bcr_portion_barcode>
|
| 393 |
+
<bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8f4ccf41-068d-45e1-addb-4977a8c355f7</bio:bcr_portion_uuid>
|
| 394 |
+
<bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
|
| 395 |
+
<bio:analytes>
|
| 396 |
+
<bio:analyte>
|
| 397 |
+
<admin:additional_studies/>
|
| 398 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 399 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
|
| 400 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
|
| 401 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 402 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.93</bio:a260_a280_ratio>
|
| 403 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 404 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 405 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D</bio:bcr_analyte_barcode>
|
| 406 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fc04a627-9922-4c04-94b5-7a47920e4037</bio:bcr_analyte_uuid>
|
| 407 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 408 |
+
<bio:aliquots>
|
| 409 |
+
<bio:aliquot>
|
| 410 |
+
<admin:additional_studies/>
|
| 411 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10K</bio:plate_id>
|
| 412 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
|
| 413 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 414 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 415 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 416 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D-A10K-02</bio:bcr_aliquot_barcode>
|
| 417 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f374f9df-2d12-4145-8eba-c94c820f8c31</bio:bcr_aliquot_uuid>
|
| 418 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 419 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 420 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
|
| 421 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 422 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
|
| 423 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100474535</bio:biospecimen_barcode_bottom>
|
| 424 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 425 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 426 |
+
</bio:aliquot>
|
| 427 |
+
<bio:aliquot>
|
| 428 |
+
<admin:additional_studies/>
|
| 429 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10L</bio:plate_id>
|
| 430 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 431 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 432 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 433 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 434 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D-A10L-01</bio:bcr_aliquot_barcode>
|
| 435 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">41f1ff30-b93a-4514-adc2-44243095f3ce</bio:bcr_aliquot_uuid>
|
| 436 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 437 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 438 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 439 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 440 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
|
| 441 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100473575</bio:biospecimen_barcode_bottom>
|
| 442 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 443 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 444 |
+
</bio:aliquot>
|
| 445 |
+
<bio:aliquot>
|
| 446 |
+
<admin:additional_studies/>
|
| 447 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10M</bio:plate_id>
|
| 448 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 449 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_shipment>
|
| 450 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
|
| 451 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
|
| 452 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D-A10M-09</bio:bcr_aliquot_barcode>
|
| 453 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">cf7bd3e2-fe1d-43bc-a1dd-14197984162e</bio:bcr_aliquot_uuid>
|
| 454 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
|
| 455 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
|
| 456 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.00</bio:volume>
|
| 457 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 458 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
|
| 459 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100473177</bio:biospecimen_barcode_bottom>
|
| 460 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 461 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 462 |
+
</bio:aliquot>
|
| 463 |
+
<bio:aliquot>
|
| 464 |
+
<admin:additional_studies/>
|
| 465 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A125</bio:plate_id>
|
| 466 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
|
| 467 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">24</bio:day_of_shipment>
|
| 468 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">01</bio:month_of_shipment>
|
| 469 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 470 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D-A125-01</bio:bcr_aliquot_barcode>
|
| 471 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d962aa49-a0d9-47a0-a1e0-48517e934582</bio:bcr_aliquot_uuid>
|
| 472 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 473 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
|
| 474 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
|
| 475 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A</bio:plate_row>
|
| 476 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
|
| 477 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0105041351</bio:biospecimen_barcode_bottom>
|
| 478 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 479 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 480 |
+
</bio:aliquot>
|
| 481 |
+
<bio:aliquot>
|
| 482 |
+
<admin:additional_studies/>
|
| 483 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A894</bio:plate_id>
|
| 484 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
|
| 485 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">23</bio:day_of_shipment>
|
| 486 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_shipment>
|
| 487 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2022</bio:year_of_shipment>
|
| 488 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01D-A894-36</bio:bcr_aliquot_barcode>
|
| 489 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">026B8552-1025-43C1-8051-1B332CBC5D2D</bio:bcr_aliquot_uuid>
|
| 490 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
|
| 491 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">8.00</bio:quantity>
|
| 492 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">50.00</bio:volume>
|
| 493 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
|
| 494 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6</bio:plate_column>
|
| 495 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3528621391</bio:biospecimen_barcode_bottom>
|
| 496 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 497 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 498 |
+
</bio:aliquot>
|
| 499 |
+
</bio:aliquots>
|
| 500 |
+
<bio:protocols>
|
| 501 |
+
<bio:protocol>
|
| 502 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Pre-extracted DNA received by TSS</bio:experimental_protocol_type>
|
| 503 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 504 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 505 |
+
</bio:protocol>
|
| 506 |
+
</bio:protocols>
|
| 507 |
+
<bio:dna>
|
| 508 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 509 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 510 |
+
</bio:dna>
|
| 511 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
|
| 512 |
+
</bio:analyte>
|
| 513 |
+
<bio:analyte>
|
| 514 |
+
<admin:additional_studies/>
|
| 515 |
+
<bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 516 |
+
<bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
|
| 517 |
+
<bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
|
| 518 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 519 |
+
<bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 520 |
+
<bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
|
| 521 |
+
<bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 522 |
+
<bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01W</bio:bcr_analyte_barcode>
|
| 523 |
+
<bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2DA4776D-4C59-4F8D-8A8C-3046E34C9C5A</bio:bcr_analyte_uuid>
|
| 524 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 525 |
+
<bio:aliquots>
|
| 526 |
+
<bio:aliquot>
|
| 527 |
+
<admin:additional_studies/>
|
| 528 |
+
<bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A124</bio:plate_id>
|
| 529 |
+
<bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
|
| 530 |
+
<bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">24</bio:day_of_shipment>
|
| 531 |
+
<bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">01</bio:month_of_shipment>
|
| 532 |
+
<bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
|
| 533 |
+
<bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A128-10A-01W-A124-09</bio:bcr_aliquot_barcode>
|
| 534 |
+
<bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">af4f0ede-dde5-4a82-b57f-8f3fed21d100</bio:bcr_aliquot_uuid>
|
| 535 |
+
<bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
|
| 536 |
+
<bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
|
| 537 |
+
<bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
|
| 538 |
+
<bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
|
| 539 |
+
<bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
|
| 540 |
+
<bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100478058</bio:biospecimen_barcode_bottom>
|
| 541 |
+
<bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
|
| 542 |
+
<bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
|
| 543 |
+
</bio:aliquot>
|
| 544 |
+
</bio:aliquots>
|
| 545 |
+
<bio:protocols>
|
| 546 |
+
<bio:protocol>
|
| 547 |
+
<bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
|
| 548 |
+
<bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 549 |
+
<bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 550 |
+
</bio:protocol>
|
| 551 |
+
</bio:protocols>
|
| 552 |
+
<bio:dna>
|
| 553 |
+
<bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
|
| 554 |
+
<bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
|
| 555 |
+
</bio:dna>
|
| 556 |
+
<bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 557 |
+
</bio:analyte>
|
| 558 |
+
</bio:analytes>
|
| 559 |
+
<bio:slides/>
|
| 560 |
+
<bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
|
| 561 |
+
</bio:portion>
|
| 562 |
+
</bio:portions>
|
| 563 |
+
<bio:tumor_pathology/>
|
| 564 |
+
<bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
|
| 565 |
+
<bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
|
| 566 |
+
<shared:days_to_sample_procurement cde="3288495" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 567 |
+
<bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
|
| 568 |
+
<bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
|
| 569 |
+
<bio:diagnostic_slides>
|
| 570 |
+
<admin:additional_studies/>
|
| 571 |
+
</bio:diagnostic_slides>
|
| 572 |
+
</bio:sample>
|
| 573 |
+
</bio:samples>
|
| 574 |
+
</bio:patient>
|
| 575 |
+
</bio:tcga_bcr>
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_clinical.TCGA-AO-A128.xml
ADDED
|
@@ -0,0 +1,389 @@
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|
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|
|
|
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|
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<?xml version="1.0" encoding="UTF-8"?>
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<brca:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/clinical/brca/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/clinical/brca/2.7/TCGA_BCR.BRCA_Clinical.xsd" schemaVersion="2.7" xmlns:brca="http://tcga.nci/bcr/xml/clinical/brca/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:clin_shared="http://tcga.nci/bcr/xml/clinical/shared/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:brca_shared="http://tcga.nci/bcr/xml/clinical/brca/shared/2.7" xmlns:shared_stage="http://tcga.nci/bcr/xml/clinical/shared/stage/2.7" xmlns:brca_nte="http://tcga.nci/bcr/xml/clinical/brca/shared/new_tumor_event/2.7/1.0" xmlns:nte="http://tcga.nci/bcr/xml/clinical/shared/new_tumor_event/2.7" xmlns:follow_up_v1.5="http://tcga.nci/bcr/xml/clinical/brca/followup/2.7/1.5" xmlns:follow_up_v2.1="http://tcga.nci/bcr/xml/clinical/brca/followup/2.7/2.1" xmlns:rx="http://tcga.nci/bcr/xml/clinical/pharmaceutical/2.7" xmlns:rad="http://tcga.nci/bcr/xml/clinical/radiation/2.7">
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| 3 |
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<admin:admin>
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| 4 |
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<admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
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| 5 |
+
<admin:file_uuid xsd_ver="2.6">B5268F93-15EF-43A1-8BE2-0B2028D0A7FD</admin:file_uuid>
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| 6 |
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<admin:batch_number xsd_ver="1.17">80.84.0</admin:batch_number>
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| 7 |
+
<admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
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| 8 |
+
<admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
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| 9 |
+
<admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
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| 10 |
+
<admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
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| 11 |
+
<admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
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| 12 |
+
<admin:patient_withdrawal>
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| 13 |
+
<admin:withdrawn>false</admin:withdrawn>
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| 14 |
+
</admin:patient_withdrawal>
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| 15 |
+
<admin:program xsi:nil="true" xsd_ver="2.7"/>
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| 16 |
+
<admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
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| 17 |
+
</admin:admin>
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| 18 |
+
<brca:patient>
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| 19 |
+
<admin:additional_studies/>
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| 20 |
+
<clin_shared:tumor_tissue_site preferred_name="submitted_tumor_site" display_order="9999" cde="3427536" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467200">Breast</clin_shared:tumor_tissue_site>
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| 21 |
+
<clin_shared:tumor_tissue_site_other preferred_name="site_of_primary_tumor_other" display_order="999" cde="2584114" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467201" xsi:nil="true"/>
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| 22 |
+
<shared:other_dx preferred_name="history_other_malignancy" display_order="14" cde="3382736" cde_ver="2.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467189">No</shared:other_dx>
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| 23 |
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<shared:gender preferred_name="gender" display_order="10" cde="2200604" cde_ver="3.000" xsd_ver="1.8" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467180">FEMALE</shared:gender>
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| 24 |
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<clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467185">Alive</clin_shared:vital_status>
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| 25 |
+
<clin_shared:days_to_birth precision="day" xsd_ver="1.12" tier="1" cde="3008233" owner="TSS" procurement_status="Completed" preferred_name="birth_days_to" display_order="9" cde_ver="1.000">-22340</clin_shared:days_to_birth>
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| 26 |
+
<clin_shared:days_to_last_known_alive precision="day" xsd_ver="2.1" tier="2" cde="" owner="TSS" procurement_status="Not Available" preferred_name="" display_order="9999" cde_ver=""/>
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| 27 |
+
<clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
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| 28 |
+
<clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">2877</clin_shared:days_to_last_followup>
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| 29 |
+
<clin_shared:race_list>
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| 30 |
+
<clin_shared:race preferred_name="race" display_order="12" cde="2192199" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467187">WHITE</clin_shared:race>
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| 31 |
+
</clin_shared:race_list>
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| 32 |
+
<shared:bcr_patient_barcode preferred_name="" display_order="9999" cde="2003301" cde_ver="" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128</shared:bcr_patient_barcode>
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| 33 |
+
<shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">AO</shared:tissue_source_site>
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| 34 |
+
<shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A128</shared:patient_id>
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| 35 |
+
<shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">016caf42-4e19-4444-ab5d-6cf1e76c4afa</shared:bcr_patient_uuid>
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| 36 |
+
<shared:history_of_neoadjuvant_treatment preferred_name="history_neoadjuvant_treatment" display_order="15" cde="3382737" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467190">No</shared:history_of_neoadjuvant_treatment>
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| 37 |
+
<clin_shared:informed_consent_verified preferred_name="patient_consent_status" display_order="72" cde="3288361" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false">YES</clin_shared:informed_consent_verified>
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| 38 |
+
<clin_shared:icd_o_3_site preferred_name="" display_order="9999" cde="3226281" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">C50.9</clin_shared:icd_o_3_site>
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| 39 |
+
<clin_shared:icd_o_3_histology preferred_name="" display_order="9999" cde="3226275" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">8500/3</clin_shared:icd_o_3_histology>
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| 40 |
+
<clin_shared:icd_10 preferred_name="" display_order="9999" cde="3226287" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">C50.9</clin_shared:icd_10>
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| 41 |
+
<clin_shared:days_to_initial_pathologic_diagnosis precision="day" xsd_ver="1.12" tier="1" cde="3131740" owner="TSS" procurement_status="Completed" preferred_name="initial_pathologic_dx_days_to" display_order="9999" cde_ver="1.000">0</clin_shared:days_to_initial_pathologic_diagnosis>
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| 42 |
+
<clin_shared:age_at_initial_pathologic_diagnosis precision="day" xsd_ver="1.12" tier="1" cde="2006657" owner="TSS" procurement_status="Completed">61</clin_shared:age_at_initial_pathologic_diagnosis>
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| 43 |
+
<clin_shared:year_of_initial_pathologic_diagnosis preferred_name="initial_pathologic_dx_year" display_order="34" cde="2896960" cde_ver="1.000" xsd_ver="1.12" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467207">2002</clin_shared:year_of_initial_pathologic_diagnosis>
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| 44 |
+
<clin_shared:ethnicity preferred_name="ethnicity" display_order="13" cde="2192217" cde_ver="2.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467188">NOT HISPANIC OR LATINO</clin_shared:ethnicity>
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| 45 |
+
<clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467186">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
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| 46 |
+
<clin_shared:primary_lymph_node_presentation_assessment preferred_name="lymph_nodes_examined" display_order="47" cde="2200396" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 47 |
+
<clin_shared:lymph_node_examined_count preferred_name="lymph_nodes_examined_count" display_order="48" cde="3" cde_ver="3.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467219">15</clin_shared:lymph_node_examined_count>
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| 48 |
+
<brca_shared:er_detection_method_text preferred_name="er_positivity_method" display_order="63" cde="69" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467232"/>
|
| 49 |
+
<brca_shared:pgr_detection_method_text preferred_name="pr_positivity_define_method" display_order="69" cde="785" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467237"/>
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| 50 |
+
<brca:anatomic_neoplasm_subdivisions>
|
| 51 |
+
<clin_shared:anatomic_neoplasm_subdivision preferred_name="anatomic_organ_subdivision" display_order="9999" cde="3108203" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467202">Right Lower Outer Quadrant</clin_shared:anatomic_neoplasm_subdivision>
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| 52 |
+
<clin_shared:anatomic_neoplasm_subdivision preferred_name="anatomic_organ_subdivision" display_order="9999" cde="3108203" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467202">Right</clin_shared:anatomic_neoplasm_subdivision>
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| 53 |
+
</brca:anatomic_neoplasm_subdivisions>
|
| 54 |
+
<brca_shared:her2_neu_chromosone_17_signal_ratio_value preferred_name="her2_cent17_ratio" display_order="79" cde="2497552" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467247">1.0</brca_shared:her2_neu_chromosone_17_signal_ratio_value>
|
| 55 |
+
<brca:axillary_lymph_node_stage_method_type preferred_name="axillary_staging_method" display_order="44" cde="2516112" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467216">Sentinel node biopsy alone</brca:axillary_lymph_node_stage_method_type>
|
| 56 |
+
<brca:axillary_lymph_node_stage_other_method_descriptive_text preferred_name="axillary_staging_method_other" display_order="45" cde="3124496" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467217"/>
|
| 57 |
+
<brca:breast_carcinoma_surgical_procedure_name preferred_name="surgical_procedure_first" display_order="38" cde="2739580" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467210">Lumpectomy</brca:breast_carcinoma_surgical_procedure_name>
|
| 58 |
+
<brca:breast_neoplasm_other_surgical_procedure_descriptive_text preferred_name="surgery_for_positive_margins_other" display_order="42" cde="3124493" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467214" xsi:nil="true"/>
|
| 59 |
+
<brca:breast_carcinoma_primary_surgical_procedure_name preferred_name="surgery_for_positive_margins" display_order="41" cde="1218" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467213"/>
|
| 60 |
+
<brca:surgical_procedure_purpose_other_text preferred_name="first_surgical_procedure_other" display_order="39" cde="3020338" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467211"/>
|
| 61 |
+
<shared:histological_type preferred_name="histologic_diagnosis" display_order="3" cde="3081934" cde_ver="3.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467203">Infiltrating Ductal Carcinoma</shared:histological_type>
|
| 62 |
+
<shared:histological_type_other preferred_name="histologic_diagnosis_other" display_order="31" cde="3124492" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467204" xsi:nil="true"/>
|
| 63 |
+
<clin_shared:menopause_status preferred_name="menopause_status" display_order="11" cde="2957270" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467184">Post (prior bilateral ovariectomy OR >12 mo since LMP with no prior hysterectomy)</clin_shared:menopause_status>
|
| 64 |
+
<brca_shared:breast_carcinoma_progesterone_receptor_status preferred_name="pr_status_by_ihc" display_order="64" cde="2957357" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467233">Negative</brca_shared:breast_carcinoma_progesterone_receptor_status>
|
| 65 |
+
<brca:cytokeratin_immunohistochemistry_staining_method_micrometastasis_indicator preferred_name="micromet_detection_by_ihc" display_order="46" cde="3086152" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467218">YES</brca:cytokeratin_immunohistochemistry_staining_method_micrometastasis_indicator>
|
| 66 |
+
<brca:breast_carcinoma_immunohistochemistry_er_pos_finding_scale preferred_name="er_positivity_scale_used" display_order="60" cde="3203081" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 67 |
+
<brca_shared:immunohistochemistry_positive_cell_score preferred_name="er_ihc_score" display_order="61" cde="2230166" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467230"/>
|
| 68 |
+
<brca_shared:her2_immunohistochemistry_level_result preferred_name="her2_ihc_score" display_order="72" cde="2178402" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467240">0</brca_shared:her2_immunohistochemistry_level_result>
|
| 69 |
+
<brca:breast_cancer_surgery_margin_status preferred_name="margin_status_reexcision" display_order="43" cde="2241252" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467215"/>
|
| 70 |
+
<clin_shared:margin_status preferred_name="margin_status" display_order="40" cde="3114007" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467212">Negative</clin_shared:margin_status>
|
| 71 |
+
<clin_shared:initial_pathologic_diagnosis_method preferred_name="method_initial_path_dx" display_order="36" cde="2757941" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467208">Fine needle aspiration biopsy</clin_shared:initial_pathologic_diagnosis_method>
|
| 72 |
+
<clin_shared:init_pathology_dx_method_other preferred_name="method_initial_path_dx_other" display_order="37" cde="2757948" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467209" xsi:nil="true"/>
|
| 73 |
+
<brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type preferred_name="her2_fish_status" display_order="75" cde="2854089" cde_ver="1.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467243">Negative</brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type>
|
| 74 |
+
<brca_shared:breast_carcinoma_estrogen_receptor_status preferred_name="er_status_by_ihc" display_order="58" cde="2957359" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467228">Negative</brca_shared:breast_carcinoma_estrogen_receptor_status>
|
| 75 |
+
<brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="her2_status_by_ihc" display_order="70" cde="2957563" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467238">Negative</brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status>
|
| 76 |
+
<clin_shared:number_of_lymphnodes_positive_by_ihc preferred_name="lymph_nodes_examined_ihc_count" display_order="50" cde="3086383" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467221">0</clin_shared:number_of_lymphnodes_positive_by_ihc>
|
| 77 |
+
<clin_shared:number_of_lymphnodes_positive_by_he preferred_name="lymph_nodes_examined_he_count" display_order="49" cde="3086388" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467220">0</clin_shared:number_of_lymphnodes_positive_by_he>
|
| 78 |
+
<brca_shared:pos_finding_progesterone_receptor_other_measurement_scale_text preferred_name="pr_positivity_scale_other" display_order="68" cde="3086857" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467236"/>
|
| 79 |
+
<brca_shared:positive_finding_estrogen_receptor_other_measurement_scale_text preferred_name="er_positivity_scale_other" display_order="62" cde="3086851" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467231"/>
|
| 80 |
+
<brca_shared:her2_erbb_pos_finding_cell_percent_category preferred_name="her2_ihc_percent_positive" display_order="71" cde="3086980" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467239"><10%</brca_shared:her2_erbb_pos_finding_cell_percent_category>
|
| 81 |
+
<brca_shared:pos_finding_her2_erbb2_other_measurement_scale_text preferred_name="her2_positivity_scale_other" display_order="73" cde="3087479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467241"/>
|
| 82 |
+
<brca_shared:her2_erbb_method_calculation_method_text preferred_name="her2_positivity_method_text" display_order="74" cde="3087487" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467242">3+ Positive</brca_shared:her2_erbb_method_calculation_method_text>
|
| 83 |
+
<brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count preferred_name="her2_and_cent17_cells_count" display_order="78" cde="3087902" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467246">30</brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count>
|
| 84 |
+
<brca_shared:her2_and_centromere_17_positive_finding_other_measurement_scale_text preferred_name="her2_and_cent17_scale_other" display_order="80" cde="3087923" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467248"/>
|
| 85 |
+
<brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="her2_fish_method" display_order="81" cde="3087929" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467249">>=2.0 Positive</brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text>
|
| 86 |
+
<clin_shared:tissue_prospective_collection_indicator preferred_name="prospective_collection" display_order="4" cde="3088492" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467178">NO</clin_shared:tissue_prospective_collection_indicator>
|
| 87 |
+
<clin_shared:tissue_retrospective_collection_indicator preferred_name="retrospective_collection" display_order="5" cde="3088528" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467179">YES</clin_shared:tissue_retrospective_collection_indicator>
|
| 88 |
+
<brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range preferred_name="cent17_copy_number" display_order="77" cde="3104295" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467245">49</brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range>
|
| 89 |
+
<brca:first_nonlymph_node_metastasis_anatomic_sites>
|
| 90 |
+
<clin_shared:metastatic_site_at_diagnosis preferred_name="metastasis_site" display_order="56" cde="3124499" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467226"/>
|
| 91 |
+
<clin_shared:metastatic_site_at_diagnosis_other preferred_name="metastasis_site_other" display_order="57" cde="3124503" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467227"/>
|
| 92 |
+
</brca:first_nonlymph_node_metastasis_anatomic_sites>
|
| 93 |
+
<brca_shared:er_level_cell_percentage_category preferred_name="er_status_ihc_Percent_Positive" display_order="59" cde="3128341" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467229"><10%</brca_shared:er_level_cell_percentage_category>
|
| 94 |
+
<brca_shared:progesterone_receptor_level_cell_percent_category preferred_name="pr_status_ihc_percent_positive" display_order="65" cde="3128342" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467234"><10%</brca_shared:progesterone_receptor_level_cell_percent_category>
|
| 95 |
+
<brca:distant_metastasis_present_ind2 preferred_name="metastatic_tumor_indicator" display_order="999" cde="2194698" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 96 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467250"/>
|
| 97 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467251"/>
|
| 98 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467252"/>
|
| 99 |
+
<brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467253"/>
|
| 100 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467254"/>
|
| 101 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467255"/>
|
| 102 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467260"/>
|
| 103 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467256"/>
|
| 104 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467257"/>
|
| 105 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467258"/>
|
| 106 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467259"/>
|
| 107 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467261"/>
|
| 108 |
+
<brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467262"/>
|
| 109 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467263"/>
|
| 110 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467264"/>
|
| 111 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467265"/>
|
| 112 |
+
<brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467267"/>
|
| 113 |
+
<brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467268"/>
|
| 114 |
+
<brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467269"/>
|
| 115 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467270"/>
|
| 116 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467271"/>
|
| 117 |
+
<brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467266"/>
|
| 118 |
+
<brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number preferred_name="her2_copy_number" display_order="76" cde="3133738" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467244">52</brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number>
|
| 119 |
+
<brca:breast_carcinoma_immunohistochemistry_progesterone_receptor_pos_finding_scale preferred_name="pr_positivity_scale_used" display_order="66" cde="3203083" cde_ver="1.000" xsd_ver="2.4.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 120 |
+
<brca_shared:breast_carcinoma_immunohistochemistry_pos_cell_score preferred_name="pr_positivity_ihc_intensity_score" display_order="67" cde="3133874" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467235"/>
|
| 121 |
+
<shared_stage:stage_event system="AJCC">
|
| 122 |
+
<shared_stage:system_version preferred_name="ajcc_staging_edition" display_order="51" cde="2722309" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1080068"/>
|
| 123 |
+
<shared_stage:clinical_stage preferred_name="ajcc_clinical_tumor_stage" display_order="9999" cde="3440332" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 124 |
+
<shared_stage:pathologic_stage preferred_name="ajcc_pathologic_tumor_stage" display_order="55" cde="3203222" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467225">Stage IIA</shared_stage:pathologic_stage>
|
| 125 |
+
<shared_stage:tnm_categories>
|
| 126 |
+
<shared_stage:clinical_categories>
|
| 127 |
+
<shared_stage:clinical_T preferred_name="ajcc_tumor_clinical_ct" display_order="9999" cde="3440328" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 128 |
+
<shared_stage:clinical_N preferred_name="ajcc_nodes_clinical_cn" display_order="9999" cde="3440330" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 129 |
+
<shared_stage:clinical_M preferred_name="ajcc_metastasis_clinical_cm" display_order="9999" cde="3440331" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 130 |
+
</shared_stage:clinical_categories>
|
| 131 |
+
<shared_stage:pathologic_categories>
|
| 132 |
+
<shared_stage:pathologic_T preferred_name="ajcc_tumor_pathologic_pt" display_order="52" cde="3045435" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467222">T2</shared_stage:pathologic_T>
|
| 133 |
+
<shared_stage:pathologic_N preferred_name="ajcc_nodes_pathologic_pn" display_order="53" cde="3203106" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467223">N0 (i-)</shared_stage:pathologic_N>
|
| 134 |
+
<shared_stage:pathologic_M preferred_name="ajcc_metastasis_pathologic_pm" display_order="54" cde="3045439" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467224">M0</shared_stage:pathologic_M>
|
| 135 |
+
</shared_stage:pathologic_categories>
|
| 136 |
+
</shared_stage:tnm_categories>
|
| 137 |
+
<shared_stage:psa>
|
| 138 |
+
<shared_stage:psa_value preferred_name="psa_most_recent_results" display_order="9999" cde="3351903" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 139 |
+
<shared_stage:days_to_psa precision="day" xsd_ver="2.6" tier="2" cde="3414608" owner="TSS" procurement_status="Not Applicable" preferred_name="days_to_psa_most_recent" display_order="9999" cde_ver="1.000"/>
|
| 140 |
+
</shared_stage:psa>
|
| 141 |
+
<shared_stage:gleason_grading>
|
| 142 |
+
<shared_stage:gleason_score preferred_name="gleason_score" display_order="9999" cde="2534619" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 143 |
+
<shared_stage:primary_pattern preferred_name="gleason_pattern_primary" display_order="9999" cde="2534617" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 144 |
+
<shared_stage:secondary_pattern preferred_name="gleason_pattern_secondary" display_order="9999" cde="2534618" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 145 |
+
<shared_stage:tertiary_pattern preferred_name="gleason_pattern_tertiary" display_order="9999" cde="2783875" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 146 |
+
</shared_stage:gleason_grading>
|
| 147 |
+
<shared_stage:ann_arbor>
|
| 148 |
+
<shared_stage:b_symptoms preferred_name="b_symptoms_present_indicator" display_order="9999" cde="2902402" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 149 |
+
<shared_stage:extranodal_involvement preferred_name="extranodal_lymphomatous_involvement" display_order="9999" cde="3364582" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 150 |
+
</shared_stage:ann_arbor>
|
| 151 |
+
<shared_stage:serum_markers preferred_name="" display_order="9999" cde="3901772" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 152 |
+
<shared_stage:igcccg_stage preferred_name="" display_order="9999" cde="3901822" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 153 |
+
<shared_stage:masaoka_stage preferred_name="" display_order="9999" cde="3952848" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 154 |
+
</shared_stage:stage_event>
|
| 155 |
+
<clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 156 |
+
<clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 157 |
+
<brca_nte:new_tumor_events>
|
| 158 |
+
<nte:new_tumor_event_after_initial_treatment preferred_name="new_tumor_event_dx_indicator" display_order="82" cde="3121376" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 159 |
+
</brca_nte:new_tumor_events>
|
| 160 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467176">7</clin_shared:day_of_form_completion>
|
| 161 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467175">12</clin_shared:month_of_form_completion>
|
| 162 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467177">2010</clin_shared:year_of_form_completion>
|
| 163 |
+
<brca:follow_ups>
|
| 164 |
+
<follow_up_v1.5:follow_up version="1.5" sequence="1">
|
| 165 |
+
<clin_shared:bcr_followup_barcode preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-F5879</clin_shared:bcr_followup_barcode>
|
| 166 |
+
<clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">2A6DEEAE-C739-4E88-8095-431BF42899E3</clin_shared:bcr_followup_uuid>
|
| 167 |
+
<clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">2877</clin_shared:days_to_last_followup>
|
| 168 |
+
<clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467280">Alive</clin_shared:vital_status>
|
| 169 |
+
<clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467281">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
|
| 170 |
+
<clin_shared:days_to_last_known_alive precision="day" xsd_ver="2.1" tier="2" cde="" owner="TSS" procurement_status="Not Available" preferred_name="" display_order="9999" cde_ver=""/>
|
| 171 |
+
<clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
|
| 172 |
+
<clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467288">YES</clin_shared:radiation_therapy>
|
| 173 |
+
<clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467289">YES</clin_shared:postoperative_rx_tx>
|
| 174 |
+
<nte:days_to_new_tumor_event_after_initial_treatment precision="day" xsd_ver="2.2" tier="1" cde="3392464" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_dx_days_to" display_order="89" cde_ver="1.000"/>
|
| 175 |
+
<nte:additional_surgery_locoregional_procedure preferred_name="new_tumor_event_surgery" display_order="999" cde="3008755" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467293"/>
|
| 176 |
+
<nte:days_to_additional_surgery_locoregional_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408572" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_loco" display_order="9999" cde_ver="1.000"/>
|
| 177 |
+
<brca_shared:breast_carcinoma_estrogen_receptor_status preferred_name="er_status_by_ihc" display_order="58" cde="2957359" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467297"/>
|
| 178 |
+
<brca_shared:er_level_cell_percentage_category preferred_name="er_status_ihc_Percent_Positive" display_order="59" cde="3128341" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467298"/>
|
| 179 |
+
<brca_shared:immunohistochemistry_positive_cell_score preferred_name="er_ihc_score" display_order="61" cde="2230166" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467299"/>
|
| 180 |
+
<brca_shared:positive_finding_estrogen_receptor_other_measurement_scale_text preferred_name="er_positivity_scale_other" display_order="62" cde="3086851" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467300"/>
|
| 181 |
+
<brca_shared:er_detection_method_text preferred_name="er_positivity_method" display_order="63" cde="69" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467301"/>
|
| 182 |
+
<brca_shared:breast_carcinoma_progesterone_receptor_status preferred_name="pr_status_by_ihc" display_order="64" cde="2957357" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467302"/>
|
| 183 |
+
<brca_shared:progesterone_receptor_level_cell_percent_category preferred_name="pr_status_ihc_percent_positive" display_order="65" cde="3128342" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467303"/>
|
| 184 |
+
<brca_shared:breast_carcinoma_immunohistochemistry_pos_cell_score preferred_name="pr_positivity_ihc_intensity_score" display_order="67" cde="3133874" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467304"/>
|
| 185 |
+
<brca_shared:pos_finding_progesterone_receptor_other_measurement_scale_text preferred_name="pr_positivity_scale_other" display_order="68" cde="3086857" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467305"/>
|
| 186 |
+
<brca_shared:pgr_detection_method_text preferred_name="pr_positivity_define_method" display_order="69" cde="785" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467306"/>
|
| 187 |
+
<brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="her2_status_by_ihc" display_order="70" cde="2957563" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467307"/>
|
| 188 |
+
<brca_shared:her2_erbb_pos_finding_cell_percent_category preferred_name="her2_ihc_percent_positive" display_order="71" cde="3086980" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467308"/>
|
| 189 |
+
<brca_shared:her2_immunohistochemistry_level_result preferred_name="her2_ihc_score" display_order="72" cde="2178402" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467309"/>
|
| 190 |
+
<brca_shared:pos_finding_her2_erbb2_other_measurement_scale_text preferred_name="her2_positivity_scale_other" display_order="73" cde="3087479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467310"/>
|
| 191 |
+
<brca_shared:her2_erbb_method_calculation_method_text preferred_name="her2_positivity_method_text" display_order="74" cde="3087487" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467311"/>
|
| 192 |
+
<brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type preferred_name="her2_fish_status" display_order="75" cde="2854089" cde_ver="1.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467312"/>
|
| 193 |
+
<brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number preferred_name="her2_copy_number" display_order="76" cde="3133738" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467313"/>
|
| 194 |
+
<brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range preferred_name="cent17_copy_number" display_order="77" cde="3104295" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467314"/>
|
| 195 |
+
<brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count preferred_name="her2_and_cent17_cells_count" display_order="78" cde="3087902" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467315"/>
|
| 196 |
+
<brca_shared:her2_neu_chromosone_17_signal_ratio_value preferred_name="her2_cent17_ratio" display_order="79" cde="2497552" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467316"/>
|
| 197 |
+
<brca_shared:her2_and_centromere_17_positive_finding_other_measurement_scale_text preferred_name="her2_and_cent17_scale_other" display_order="80" cde="3087923" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467317"/>
|
| 198 |
+
<brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="her2_fish_method" display_order="81" cde="3087929" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467318"/>
|
| 199 |
+
<nte:additional_surgery_metastatic_procedure preferred_name="new_tumor_event_surgery_met" display_order="999" cde="3008757" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467319"/>
|
| 200 |
+
<nte:days_to_additional_surgery_metastatic_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408682" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_met" display_order="9999" cde_ver="1.000"/>
|
| 201 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467323"/>
|
| 202 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467324"/>
|
| 203 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467325"/>
|
| 204 |
+
<brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467326"/>
|
| 205 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467327"/>
|
| 206 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467328"/>
|
| 207 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467329"/>
|
| 208 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467330"/>
|
| 209 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467331"/>
|
| 210 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467332"/>
|
| 211 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467333"/>
|
| 212 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467334"/>
|
| 213 |
+
<brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467335"/>
|
| 214 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467336"/>
|
| 215 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467337"/>
|
| 216 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467338"/>
|
| 217 |
+
<brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467339"/>
|
| 218 |
+
<brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467340"/>
|
| 219 |
+
<brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467341"/>
|
| 220 |
+
<brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467342"/>
|
| 221 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467343"/>
|
| 222 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467344"/>
|
| 223 |
+
<nte:additional_radiation_therapy preferred_name="new_tumor_event_radiation_tx" display_order="95" cde="3427615" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467345"/>
|
| 224 |
+
<nte:additional_pharmaceutical_therapy preferred_name="new_tumor_event_pharmaceutical_tx" display_order="96" cde="3427616" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467346"/>
|
| 225 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467275">7</clin_shared:day_of_form_completion>
|
| 226 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467274">12</clin_shared:month_of_form_completion>
|
| 227 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467276">2010</clin_shared:year_of_form_completion>
|
| 228 |
+
</follow_up_v1.5:follow_up>
|
| 229 |
+
<follow_up_v2.1:follow_up version="2.1" sequence="2">
|
| 230 |
+
<clin_shared:bcr_followup_barcode preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-F19405</clin_shared:bcr_followup_barcode>
|
| 231 |
+
<clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">CAAF9EFF-2A56-4182-A1F0-115AA2CDDAED</clin_shared:bcr_followup_uuid>
|
| 232 |
+
<clin_shared:followup_case_report_form_submission_reason preferred_name="followup_reason" display_order="999" cde="3233305" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454153">Scheduled Follow-up Submission</clin_shared:followup_case_report_form_submission_reason>
|
| 233 |
+
<clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454160">YES</clin_shared:radiation_therapy>
|
| 234 |
+
<clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454161">YES</clin_shared:postoperative_rx_tx>
|
| 235 |
+
<clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454162">Alive</clin_shared:vital_status>
|
| 236 |
+
<clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">3248</clin_shared:days_to_last_followup>
|
| 237 |
+
<clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
|
| 238 |
+
<clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454169">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
|
| 239 |
+
<nte:new_tumor_event_after_initial_treatment preferred_name="new_tumor_event_dx_indicator" display_order="82" cde="3121376" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454170">NO</nte:new_tumor_event_after_initial_treatment>
|
| 240 |
+
<nte:days_to_new_tumor_event_after_initial_treatment precision="day" xsd_ver="2.2" tier="1" cde="3392464" owner="TSS" procurement_status="Not Applicable" preferred_name="new_tumor_event_dx_days_to" display_order="89" cde_ver="1.000"/>
|
| 241 |
+
<nte:new_neoplasm_event_type preferred_name="new_tumor_event_type" display_order="83" cde="3119721" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454174"/>
|
| 242 |
+
<nte:new_neoplasm_event_occurrence_anatomic_site preferred_name="new_tumor_event_site" display_order="84" cde="3108271" cde_ver="2.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454175"/>
|
| 243 |
+
<nte:new_neoplasm_occurrence_anatomic_site_text preferred_name="new_tumor_event_site_other" display_order="85" cde="3128033" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454176"/>
|
| 244 |
+
<nte:additional_surgery_locoregional_procedure preferred_name="new_tumor_event_surgery" display_order="999" cde="3008755" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454177"/>
|
| 245 |
+
<nte:days_to_additional_surgery_metastatic_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408682" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_met" display_order="9999" cde_ver="1.000"/>
|
| 246 |
+
<nte:additional_radiation_therapy preferred_name="new_tumor_event_radiation_tx" display_order="95" cde="3427615" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454181"/>
|
| 247 |
+
<nte:additional_pharmaceutical_therapy preferred_name="new_tumor_event_pharmaceutical_tx" display_order="96" cde="3427616" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454182"/>
|
| 248 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454183"/>
|
| 249 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454184"/>
|
| 250 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_positive_finding_scale_type preferred_name="nte_er_positivity_scale_used" display_order="99" cde="3203082" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454185"/>
|
| 251 |
+
<brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454186"/>
|
| 252 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454187"/>
|
| 253 |
+
<brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454188"/>
|
| 254 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454189"/>
|
| 255 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454190"/>
|
| 256 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_progesterone_receptor_positive_finding_scale_type preferred_name="nte_pr_positivity_scale_used" display_order="105" cde="3203085" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454191"/>
|
| 257 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454192"/>
|
| 258 |
+
<brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454193"/>
|
| 259 |
+
<brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454194"/>
|
| 260 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454195"/>
|
| 261 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454196"/>
|
| 262 |
+
<brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454197"/>
|
| 263 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454198"/>
|
| 264 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454199"/>
|
| 265 |
+
<brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454200"/>
|
| 266 |
+
<brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454201"/>
|
| 267 |
+
<brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454202"/>
|
| 268 |
+
<brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454203"/>
|
| 269 |
+
<brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454204"/>
|
| 270 |
+
<brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454205"/>
|
| 271 |
+
<brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454206"/>
|
| 272 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454151">12</clin_shared:day_of_form_completion>
|
| 273 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454150">12</clin_shared:month_of_form_completion>
|
| 274 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454152">2011</clin_shared:year_of_form_completion>
|
| 275 |
+
</follow_up_v2.1:follow_up>
|
| 276 |
+
</brca:follow_ups>
|
| 277 |
+
<rx:drugs>
|
| 278 |
+
<rx:drug>
|
| 279 |
+
<rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 280 |
+
<rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470892">1</rx:regimen_number>
|
| 281 |
+
<rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5943</rx:bcr_drug_barcode>
|
| 282 |
+
<rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">e2154fbe-e02b-44f3-a61a-e08146c61db2</rx:bcr_drug_uuid>
|
| 283 |
+
<rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470901">480</rx:total_dose>
|
| 284 |
+
<rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470902">mg</rx:total_dose_units>
|
| 285 |
+
<rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470899">62</rx:prescribed_dose>
|
| 286 |
+
<rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470900">mg/m2</rx:prescribed_dose_units>
|
| 287 |
+
<rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470898">4</rx:number_cycles>
|
| 288 |
+
<rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">82</rx:days_to_drug_therapy_start>
|
| 289 |
+
<rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">124</rx:days_to_drug_therapy_end>
|
| 290 |
+
<rx:therapy_types>
|
| 291 |
+
<rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470895">Chemotherapy</rx:therapy_type>
|
| 292 |
+
<rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470896"/>
|
| 293 |
+
</rx:therapy_types>
|
| 294 |
+
<rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470897">Doxorubicin</rx:drug_name>
|
| 295 |
+
<rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 296 |
+
<clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470893">ADJUVANT</clin_shared:regimen_indication>
|
| 297 |
+
<clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470894"/>
|
| 298 |
+
<rx:route_of_administrations>
|
| 299 |
+
<rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470903">IV</rx:route_of_administration>
|
| 300 |
+
</rx:route_of_administrations>
|
| 301 |
+
<rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470907">NO</rx:therapy_ongoing>
|
| 302 |
+
<clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 303 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470890">10</clin_shared:day_of_form_completion>
|
| 304 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470889">1</clin_shared:month_of_form_completion>
|
| 305 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470891">2011</clin_shared:year_of_form_completion>
|
| 306 |
+
</rx:drug>
|
| 307 |
+
<rx:drug>
|
| 308 |
+
<rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 309 |
+
<rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470916">1</rx:regimen_number>
|
| 310 |
+
<rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5945</rx:bcr_drug_barcode>
|
| 311 |
+
<rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">39C00F42-C756-42EC-98DC-BB6F6434718B</rx:bcr_drug_uuid>
|
| 312 |
+
<rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470925">1360</rx:total_dose>
|
| 313 |
+
<rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470926">mg</rx:total_dose_units>
|
| 314 |
+
<rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470923">175</rx:prescribed_dose>
|
| 315 |
+
<rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470924">mg/m2</rx:prescribed_dose_units>
|
| 316 |
+
<rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470922">4</rx:number_cycles>
|
| 317 |
+
<rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">160</rx:days_to_drug_therapy_start>
|
| 318 |
+
<rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">222</rx:days_to_drug_therapy_end>
|
| 319 |
+
<rx:therapy_types>
|
| 320 |
+
<rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470919">Chemotherapy</rx:therapy_type>
|
| 321 |
+
<rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470920"/>
|
| 322 |
+
</rx:therapy_types>
|
| 323 |
+
<rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470921">Paclitaxel</rx:drug_name>
|
| 324 |
+
<rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 325 |
+
<clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470917">ADJUVANT</clin_shared:regimen_indication>
|
| 326 |
+
<clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470918"/>
|
| 327 |
+
<rx:route_of_administrations>
|
| 328 |
+
<rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470927">IV</rx:route_of_administration>
|
| 329 |
+
</rx:route_of_administrations>
|
| 330 |
+
<rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470931">NO</rx:therapy_ongoing>
|
| 331 |
+
<clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 332 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470914">10</clin_shared:day_of_form_completion>
|
| 333 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470913">1</clin_shared:month_of_form_completion>
|
| 334 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470915">2011</clin_shared:year_of_form_completion>
|
| 335 |
+
</rx:drug>
|
| 336 |
+
<rx:drug>
|
| 337 |
+
<rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 338 |
+
<rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470868">1</rx:regimen_number>
|
| 339 |
+
<rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5942</rx:bcr_drug_barcode>
|
| 340 |
+
<rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">554dcbf2-b7a5-4237-9b68-7484e41a52ab</rx:bcr_drug_uuid>
|
| 341 |
+
<rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470877">4800</rx:total_dose>
|
| 342 |
+
<rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470878">mg</rx:total_dose_units>
|
| 343 |
+
<rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470875">619</rx:prescribed_dose>
|
| 344 |
+
<rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470876">mg/m2</rx:prescribed_dose_units>
|
| 345 |
+
<rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470874">4</rx:number_cycles>
|
| 346 |
+
<rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">82</rx:days_to_drug_therapy_start>
|
| 347 |
+
<rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">124</rx:days_to_drug_therapy_end>
|
| 348 |
+
<rx:therapy_types>
|
| 349 |
+
<rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470871">Chemotherapy</rx:therapy_type>
|
| 350 |
+
<rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470872"/>
|
| 351 |
+
</rx:therapy_types>
|
| 352 |
+
<rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470873">Cyclophosphamide</rx:drug_name>
|
| 353 |
+
<rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 354 |
+
<clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470869">ADJUVANT</clin_shared:regimen_indication>
|
| 355 |
+
<clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470870"/>
|
| 356 |
+
<rx:route_of_administrations>
|
| 357 |
+
<rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470879">IV</rx:route_of_administration>
|
| 358 |
+
</rx:route_of_administrations>
|
| 359 |
+
<rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470883">NO</rx:therapy_ongoing>
|
| 360 |
+
<clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 361 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470866">10</clin_shared:day_of_form_completion>
|
| 362 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470865">1</clin_shared:month_of_form_completion>
|
| 363 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470867">2011</clin_shared:year_of_form_completion>
|
| 364 |
+
</rx:drug>
|
| 365 |
+
</rx:drugs>
|
| 366 |
+
<rad:radiations>
|
| 367 |
+
<rad:radiation>
|
| 368 |
+
<rad:bcr_radiation_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-R5880</rad:bcr_radiation_barcode>
|
| 369 |
+
<rad:bcr_radiation_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">a8fd3954-09d3-4dd2-8fa4-4e734dc2918b</rad:bcr_radiation_uuid>
|
| 370 |
+
<rad:days_to_radiation_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3008313" owner="TSS" procurement_status="Completed" preferred_name="radiation_therapy_started_days_to" display_order="33" cde_ver="1.000">263</rad:days_to_radiation_therapy_start>
|
| 371 |
+
<rad:days_to_radiation_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3008333" owner="TSS" procurement_status="Completed" preferred_name="radiation_therapy_ended_days_to" display_order="17" cde_ver="1.000">308</rad:days_to_radiation_therapy_end>
|
| 372 |
+
<rad:radiation_type preferred_name="radiation_therapy_type" display_order="4" cde="2842944" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467412">EXTERNAL BEAM</rad:radiation_type>
|
| 373 |
+
<rad:radiation_type_notes preferred_name="radiation_type_other" display_order="999" cde="2195477" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467413"/>
|
| 374 |
+
<rad:radiation_dosage preferred_name="radiation_total_dose" display_order="6" cde="2721441" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467415">6040</rad:radiation_dosage>
|
| 375 |
+
<rad:units preferred_name="radiation_adjuvant_units" display_order="7" cde="61446" cde_ver="3.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467416">cGy</rad:units>
|
| 376 |
+
<rad:numfractions preferred_name="radiation_adjuvant_fractions_total" display_order="8" cde="61465" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467417">33</rad:numfractions>
|
| 377 |
+
<rad:anatomic_treatment_site preferred_name="radiation_therapy_site" display_order="5" cde="2793522" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467414">Primary Tumor Field</rad:anatomic_treatment_site>
|
| 378 |
+
<clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467410">ADJUVANT</clin_shared:regimen_indication>
|
| 379 |
+
<clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467411"/>
|
| 380 |
+
<rad:radiation_treatment_ongoing preferred_name="radiation_therapy_ongoing_indicator" display_order="13" cde="2842745" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467421">NO</rad:radiation_treatment_ongoing>
|
| 381 |
+
<rad:course_number preferred_name="course_number" display_order="999" cde="2732184" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467409">1</rad:course_number>
|
| 382 |
+
<clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 383 |
+
<clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467407">7</clin_shared:day_of_form_completion>
|
| 384 |
+
<clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467406">12</clin_shared:month_of_form_completion>
|
| 385 |
+
<clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467408">2010</clin_shared:year_of_form_completion>
|
| 386 |
+
</rad:radiation>
|
| 387 |
+
</rad:radiations>
|
| 388 |
+
</brca:patient>
|
| 389 |
+
</brca:tcga_bcr>
|
processed_otsu/016caf42-4e19-4444-ab5d-6cf1e76c4afa_nationwidechildrens.org_ssf.TCGA-AO-A128.xml
ADDED
|
@@ -0,0 +1,104 @@
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|
|
|
|
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|
|
|
|
|
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|
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|
|
|
| 1 |
+
<?xml version="1.0" encoding="UTF-8"?>
|
| 2 |
+
<ssf:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/ssf/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/ssf/2.7/TCGA_BCR.SSF.xsd" schemaVersion="2.7" xmlns:ssf="http://tcga.nci/bcr/xml/ssf/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:ssf_disease="http://tcga.nci/bcr/xml/ssf_disease/2.7">
|
| 3 |
+
<admin:admin>
|
| 4 |
+
<admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
|
| 5 |
+
<admin:file_uuid xsd_ver="2.6">C77E3ED2-8030-46BB-8353-3B196A10A8D8</admin:file_uuid>
|
| 6 |
+
<admin:batch_number xsd_ver="1.17">80.84.0</admin:batch_number>
|
| 7 |
+
<admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
|
| 8 |
+
<admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
|
| 9 |
+
<admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
|
| 10 |
+
<admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
|
| 11 |
+
<admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
|
| 12 |
+
<admin:patient_withdrawal>
|
| 13 |
+
<admin:withdrawn>false</admin:withdrawn>
|
| 14 |
+
</admin:patient_withdrawal>
|
| 15 |
+
<admin:program xsi:nil="true" xsd_ver="2.7"/>
|
| 16 |
+
<admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
|
| 17 |
+
</admin:admin>
|
| 18 |
+
<ssf:patient>
|
| 19 |
+
<admin:additional_studies/>
|
| 20 |
+
<shared:bcr_patient_barcode preferred_name="" display_order="9999" cde="2003301" cde_ver="" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128</shared:bcr_patient_barcode>
|
| 21 |
+
<shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">016caf42-4e19-4444-ab5d-6cf1e76c4afa</shared:bcr_patient_uuid>
|
| 22 |
+
<shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">AO</shared:tissue_source_site>
|
| 23 |
+
<shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A128</shared:patient_id>
|
| 24 |
+
<shared:hiv_status preferred_name="hiv_status" display_order="9999" cde="2180464" cde_ver="1.000" xsd_ver="2.5" tier="" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 25 |
+
<ssf:tumor_samples>
|
| 26 |
+
<ssf:tumor_sample>
|
| 27 |
+
<ssf:bcr_sample_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false">163000c7-0633-4d89-a84f-f487517248db</ssf:bcr_sample_uuid>
|
| 28 |
+
<shared:days_to_sample_procurement precision="day" xsd_ver="2.3" tier="" cde="" owner="TSS" procurement_status="Completed" preferred_name="" display_order="9999" cde_ver="">25</shared:days_to_sample_procurement>
|
| 29 |
+
<shared:method_of_sample_procurement preferred_name="tumor_sample_procurement_method" display_order="11" cde="3103514" cde_ver="1.000" xsd_ver="2.3" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232073">Other Method, specify</shared:method_of_sample_procurement>
|
| 30 |
+
<shared:other_method_of_sample_procurement preferred_name="cancer_procurement_method_other" display_order="12" cde="2006730" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232074">Lumpectomy</shared:other_method_of_sample_procurement>
|
| 31 |
+
<ssf:vessel_used preferred_name="tumor_sample_vessel_used" display_order="16" cde="3081940" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232075">Cryomold</ssf:vessel_used>
|
| 32 |
+
<ssf:other_vessel_used preferred_name="tumor_sample_ship_vessel_other" display_order="17" cde="3288137" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="232076"/>
|
| 33 |
+
<shared:maximum_tumor_dimension preferred_name="tumor_resected_max_dimension" display_order="9999" cde="64215" cde_ver="3.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 34 |
+
<ssf:tumor_weight preferred_name="tumor_sample_weight" display_order="23" cde="3081946" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232077">250</ssf:tumor_weight>
|
| 35 |
+
<ssf:sample_prescreened preferred_name="tumor_sample_prescreened_at_tss" display_order="19" cde="3081942" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232080">YES</ssf:sample_prescreened>
|
| 36 |
+
<shared:tumor_nuclei_percent preferred_name="tumor_nuclei_percent" display_order="24" cde="2841225" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232078">80</shared:tumor_nuclei_percent>
|
| 37 |
+
<shared:tumor_necrosis_percent preferred_name="necrosis_percent" display_order="25" cde="2841237" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232079">0</shared:tumor_necrosis_percent>
|
| 38 |
+
<ssf:days_to_pathology_review precision="day" xsd_ver="2.5" tier="2" cde="3288497" owner="TSS" procurement_status="Completed" preferred_name="tss_pathology_review_days_to" display_order="63" cde_ver="1.000">2580</ssf:days_to_pathology_review>
|
| 39 |
+
<ssf:path_confirm_tumor_nuclei_metrics preferred_name="tumor_nuclei_requirements_indicator" display_order="64" cde="3288520" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232150">YES</ssf:path_confirm_tumor_nuclei_metrics>
|
| 40 |
+
<ssf:path_confirm_tumor_necrosis_metrics preferred_name="necrosis_requirements_indicator" display_order="65" cde="3288524" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232151">YES</ssf:path_confirm_tumor_necrosis_metrics>
|
| 41 |
+
<ssf:path_confirm_report_attached preferred_name="tss_pathology_submitted" display_order="66" cde="3288292" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232153">YES</ssf:path_confirm_report_attached>
|
| 42 |
+
<ssf:path_confirm_diagnosis_matching preferred_name="histologic_dx_consistent" display_order="68" cde="3288300" cde_ver="1.000" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232152">YES</ssf:path_confirm_diagnosis_matching>
|
| 43 |
+
<ssf:reason_path_confirm_diagnosis_not_matching preferred_name="histologic_dx_inconsistent_reason" display_order="69" cde="3288315" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 44 |
+
<ssf:top_slide_submitted preferred_name="tumor_sample_top_slide_submitted" display_order="999" cde="3081944" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232081">YES</ssf:top_slide_submitted>
|
| 45 |
+
<ssf:digital_image_submitted preferred_name="tumor_sample_image_submitted" display_order="999" cde="3081948" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232083">NO</ssf:digital_image_submitted>
|
| 46 |
+
<ssf:ffpe_tumor_slide_submitted preferred_name="ffpe_slide_submitted_indicator" display_order="9999" cde="3295811" cde_ver="1.000" xsd_ver="2.5" tier="" owner="TSS" procurement_status="Completed" restricted="false">NO</ssf:ffpe_tumor_slide_submitted>
|
| 47 |
+
<ssf:submitted_for_lce preferred_name="tumor_sample_bcr_macrodissection" display_order="9999" cde="3288488" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 48 |
+
<shared:other_dx preferred_name="history_other_malignancy" display_order="14" cde="3382736" cde_ver="2.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232155">No</shared:other_dx>
|
| 49 |
+
<shared:history_of_neoadjuvant_treatment preferred_name="history_neoadjuvant_treatment" display_order="15" cde="3382737" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232155">No</shared:history_of_neoadjuvant_treatment>
|
| 50 |
+
<shared:consent_or_death_status preferred_name="patient_consent_status" display_order="72" cde="3288361" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232156">Consented</shared:consent_or_death_status>
|
| 51 |
+
<shared:days_to_consent precision="day" xsd_ver="2.5" tier="1" cde="3288498" owner="TSS" procurement_status="Completed" preferred_name="patient_consent_days_to" display_order="76" cde_ver="1.000">5</shared:days_to_consent>
|
| 52 |
+
<shared:country preferred_name="tumor_sample_procurement_country" display_order="13" cde="3203072" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="740902"/>
|
| 53 |
+
<ssf_disease:disease_details/>
|
| 54 |
+
<ssf:tumor_histologies>
|
| 55 |
+
<ssf:tumor_histology>
|
| 56 |
+
<shared:histological_type preferred_name="histologic_diagnosis" display_order="3" cde="3081934" cde_ver="3.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232066">Infiltrating Ductal Carcinoma</shared:histological_type>
|
| 57 |
+
<shared:histological_type_other preferred_name="histologic_diagnosis_other" display_order="31" cde="3124492" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 58 |
+
<shared:histological_percentage preferred_name="histologic_diagnosis_percent" display_order="9999" cde="3729998" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 59 |
+
<shared:tumor_morphology_percentage preferred_name="" display_order="9999" cde="3729984" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 60 |
+
</ssf:tumor_histology>
|
| 61 |
+
<ssf:tumor_histology>
|
| 62 |
+
<shared:histological_type preferred_name="histologic_diagnosis" display_order="3" cde="3081934" cde_ver="3.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232085">Infiltrating Ductal Carcinoma</shared:histological_type>
|
| 63 |
+
<shared:histological_type_other preferred_name="histologic_diagnosis_other" display_order="31" cde="3124492" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 64 |
+
<shared:histological_percentage preferred_name="histologic_diagnosis_percent" display_order="9999" cde="3729998" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 65 |
+
<shared:tumor_morphology_percentage preferred_name="" display_order="9999" cde="3729984" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
|
| 66 |
+
</ssf:tumor_histology>
|
| 67 |
+
</ssf:tumor_histologies>
|
| 68 |
+
<ssf:tumor_locations>
|
| 69 |
+
<ssf:tumor_focality preferred_name="tumor_focality" display_order="9999" cde="3174022" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
|
| 70 |
+
<ssf:laterality preferred_name="" display_order="9999" cde="4742852" cde_ver="" xsd_ver="2.6" tier="" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232069">Right</ssf:laterality>
|
| 71 |
+
<ssf:tumor_location>
|
| 72 |
+
<ssf:site_of_disease preferred_name="" display_order="9999" cde="4742851" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232069">Breast</ssf:site_of_disease>
|
| 73 |
+
<ssf:site_of_disease_text preferred_name="" display_order="9999" cde="4742871" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 74 |
+
<ssf:site_of_disease_description preferred_name="" display_order="9999" cde="4742918" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="232069"/>
|
| 75 |
+
</ssf:tumor_location>
|
| 76 |
+
<ssf:tumor_location>
|
| 77 |
+
<ssf:site_of_disease preferred_name="" display_order="9999" cde="4742851" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232088">Breast</ssf:site_of_disease>
|
| 78 |
+
<ssf:site_of_disease_text preferred_name="" display_order="9999" cde="4742871" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
|
| 79 |
+
<ssf:site_of_disease_description preferred_name="" display_order="9999" cde="4742918" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="232088"/>
|
| 80 |
+
</ssf:tumor_location>
|
| 81 |
+
</ssf:tumor_locations>
|
| 82 |
+
</ssf:tumor_sample>
|
| 83 |
+
</ssf:tumor_samples>
|
| 84 |
+
<ssf:normal_controls>
|
| 85 |
+
<ssf:normal_control>
|
| 86 |
+
<ssf:bcr_sample_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false">32a8bc28-a2f9-4420-9992-9e1151b27c36</ssf:bcr_sample_uuid>
|
| 87 |
+
<ssf:method_of_normal_sample_procurement preferred_name="normal_control_method" display_order="50" cde="3288147" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232114">Blood Draw</ssf:method_of_normal_sample_procurement>
|
| 88 |
+
<ssf:other_method_of_normal_sample_procurement preferred_name="normal_control_method_other" display_order="51" cde="3288151" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="232115"/>
|
| 89 |
+
<ssf:days_to_normal_sample_procurement precision="day" xsd_ver="2.3" tier="1" cde="3288496" owner="TSS" procurement_status="Completed" preferred_name="normal_control_procurement_days_to" display_order="55" cde_ver="1.000">2827</ssf:days_to_normal_sample_procurement>
|
| 90 |
+
<ssf:normal_sample_site_proximity_to_tumor preferred_name="normal_control_proximity_to_tumor" display_order="59" cde="3088708" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="232116"/>
|
| 91 |
+
<ssf:ncedna_dna_conc preferred_name="normal_control_DNA_concentration" display_order="48" cde="3288187" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232107">0.34</ssf:ncedna_dna_conc>
|
| 92 |
+
<ssf:ncedna_dna_qm preferred_name="normal_control_DNA_quant_method" display_order="47" cde="3288186" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232106">Nanodrop</ssf:ncedna_dna_qm>
|
| 93 |
+
<ssf:ncedna_dna_qty preferred_name="normal_control_DNA_quantity" display_order="46" cde="3288185" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232105">20</ssf:ncedna_dna_qty>
|
| 94 |
+
<ssf:ncedna_dna_vol preferred_name="normal_control_DNA_volume" display_order="49" cde="3288188" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="232108">59</ssf:ncedna_dna_vol>
|
| 95 |
+
<ssf:normal_control_locations>
|
| 96 |
+
<ssf:normal_control_location>
|
| 97 |
+
<ssf:normal_tissue_anatomic_site preferred_name="" display_order="57" cde="4132152" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="232109"/>
|
| 98 |
+
<ssf:other_anatomic_site_normal_tissue preferred_name="normal_control_site_other" display_order="58" cde="3288189" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="232110"/>
|
| 99 |
+
</ssf:normal_control_location>
|
| 100 |
+
</ssf:normal_control_locations>
|
| 101 |
+
</ssf:normal_control>
|
| 102 |
+
</ssf:normal_controls>
|
| 103 |
+
</ssf:patient>
|
| 104 |
+
</ssf:tcga_bcr>
|
processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_508ba40f-1ef5-49ac-9dcf-6c32680a3338.mirbase21.isoforms.quantification.txt
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_C07_741416.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,285 @@
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|
|
|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 3301765 58090926 30225 0.1122
|
| 3 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 58091038 64884439 4757 0.1455
|
| 4 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 64884952 77069587 7409 0.1019
|
| 5 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 77079058 77751992 389 0.5275
|
| 6 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 77760195 79130783 615 0.0816
|
| 7 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 79135052 187566146 48258 0.1143
|
| 8 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 187566426 188473409 608 0.0787
|
| 9 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 188475475 188479173 4 -0.7719
|
| 10 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 188486931 197863202 5265 0.0856
|
| 11 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 197867511 214773871 11221 0.1217
|
| 12 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 214779767 230463979 9784 0.0981
|
| 13 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 230465151 232925904 1700 0.1334
|
| 14 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 1 232929890 247650984 9569 0.0899
|
| 15 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 2 480597 241537572 132244 0.1018
|
| 16 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 2170634 32355312 18226 0.111
|
| 17 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 32356480 32368759 20 -0.5169
|
| 18 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 32371540 43162592 6368 0.1085
|
| 19 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 43164470 58223696 8040 -0.5638
|
| 20 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 58225048 58225356 2 -3.6756
|
| 21 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 58229333 81316665 14249 -0.5809
|
| 22 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 81324599 94802716 4691 0.0977
|
| 23 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 94803426 95189751 202 0.5185
|
| 24 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 95194091 148035678 29318 0.1077
|
| 25 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 148035769 151092758 1832 0.5311
|
| 26 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 3 151093507 197812401 24214 0.1032
|
| 27 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 1059384 10142835 4713 0.1253
|
| 28 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 10143672 10143713 2 -1.0551
|
| 29 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 10147031 19122404 6541 0.1194
|
| 30 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 19122528 107352408 48511 0.1035
|
| 31 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 107358064 107358586 2 -1.4516
|
| 32 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 4 107358937 187842528 43763 0.1043
|
| 33 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 5 913983 15331291 9972 1.0324
|
| 34 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 5 15332460 15332597 6 -0.0018
|
| 35 |
+
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|
| 188 |
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|
| 189 |
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| 190 |
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| 191 |
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| 192 |
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| 193 |
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| 194 |
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| 198 |
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| 199 |
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| 200 |
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| 201 |
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| 202 |
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| 203 |
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| 208 |
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| 209 |
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| 210 |
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| 217 |
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|
| 218 |
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| 219 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 14 34105277 35254165 537 0.0861
|
| 220 |
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| 221 |
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| 222 |
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| 223 |
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| 233 |
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| 238 |
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| 243 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 37280886 39427917 813 -0.5482
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| 247 |
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| 252 |
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|
| 253 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 47801367 49640826 950 0.1268
|
| 254 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 49645149 52872660 1815 0.558
|
| 255 |
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| 256 |
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|
| 257 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 54859474 55650250 596 1.0909
|
| 258 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 55650422 55862300 179 0.8818
|
| 259 |
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|
| 260 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 56002207 56126113 138 0.8731
|
| 261 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 56127048 56602621 331 1.0804
|
| 262 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 56603264 56981042 308 0.8794
|
| 263 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 56986521 57370082 304 1.0978
|
| 264 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 57373857 57761315 308 0.8802
|
| 265 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 57761347 57800580 31 1.1421
|
| 266 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 57801119 57976599 111 0.8178
|
| 267 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 57978610 58465088 264 1.1544
|
| 268 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 58472159 59892474 594 1.0385
|
| 269 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 59899297 59909473 3 0.0465
|
| 270 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 59909569 61318447 677 1.0512
|
| 271 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 61318925 64329884 1447 1.2619
|
| 272 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 64332226 64951737 170 1.0356
|
| 273 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 64952455 65206786 147 1.2698
|
| 274 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 65206902 67983025 1737 1.0704
|
| 275 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 17 67983168 82959812 7546 0.1035
|
| 276 |
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e5ab2046-c8a8-4636-865c-c92d6b3da823 18 326691 79349796 42982 0.1109
|
| 277 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 19 283868 27798320 9088 0.094
|
| 278 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 19 27828826 27829127 3 -1.4897
|
| 279 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 19 27830523 58370362 15073 0.0979
|
| 280 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 20 472817 63588502 37560 0.1209
|
| 281 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 21 13974127 16956212 1851 0.1216
|
| 282 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 21 16956660 32686989 10184 0.0936
|
| 283 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 21 32688850 46262057 8574 0.1161
|
| 284 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 22 16934932 48940621 17090 0.1105
|
| 285 |
+
e5ab2046-c8a8-4636-865c-c92d6b3da823 X 3236359 155677414 63877 0.0109
|
processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_C11_741500.nocnv_grch38.seg.v2.txt
ADDED
|
@@ -0,0 +1,69 @@
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|
| 1 |
+
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean
|
| 2 |
+
4652a235-4441-4960-83e6-748033658981 1 3301765 247650984 129813 0.0143
|
| 3 |
+
4652a235-4441-4960-83e6-748033658981 2 480597 85105322 49523 0.0171
|
| 4 |
+
4652a235-4441-4960-83e6-748033658981 2 85105337 85106283 2 -1.9442
|
| 5 |
+
4652a235-4441-4960-83e6-748033658981 2 85106853 88807675 1252 0.0098
|
| 6 |
+
4652a235-4441-4960-83e6-748033658981 2 88807789 88812836 7 -0.3597
|
| 7 |
+
4652a235-4441-4960-83e6-748033658981 2 88813284 88816370 2 -1.7636
|
| 8 |
+
4652a235-4441-4960-83e6-748033658981 2 88816847 240583763 81047 0.0157
|
| 9 |
+
4652a235-4441-4960-83e6-748033658981 2 240584791 240591757 3 -1.0996
|
| 10 |
+
4652a235-4441-4960-83e6-748033658981 2 240593416 241537572 418 0.0251
|
| 11 |
+
4652a235-4441-4960-83e6-748033658981 3 2170634 197812401 107230 0.0153
|
| 12 |
+
4652a235-4441-4960-83e6-748033658981 4 1059384 39738600 24107 0.0162
|
| 13 |
+
4652a235-4441-4960-83e6-748033658981 4 39742229 39742458 2 -1.3466
|
| 14 |
+
4652a235-4441-4960-83e6-748033658981 4 39746903 118478403 42042 0.0136
|
| 15 |
+
4652a235-4441-4960-83e6-748033658981 4 118485934 118488142 4 -0.9706
|
| 16 |
+
4652a235-4441-4960-83e6-748033658981 4 118489227 121578510 1838 0.009
|
| 17 |
+
4652a235-4441-4960-83e6-748033658981 4 121584153 121584885 3 -1.1762
|
| 18 |
+
4652a235-4441-4960-83e6-748033658981 4 121585391 138680333 8746 0.0119
|
| 19 |
+
4652a235-4441-4960-83e6-748033658981 4 138683460 138683852 3 -1.1317
|
| 20 |
+
4652a235-4441-4960-83e6-748033658981 4 138685488 160415362 12448 0.0134
|
| 21 |
+
4652a235-4441-4960-83e6-748033658981 4 160416215 160416259 2 -1.196
|
| 22 |
+
4652a235-4441-4960-83e6-748033658981 4 160418798 187842528 14347 0.0141
|
| 23 |
+
4652a235-4441-4960-83e6-748033658981 5 913983 108974972 57320 0.0142
|
| 24 |
+
4652a235-4441-4960-83e6-748033658981 5 108975783 108978336 2 -1.7984
|
| 25 |
+
4652a235-4441-4960-83e6-748033658981 5 108986126 155388833 28118 0.0154
|
| 26 |
+
4652a235-4441-4960-83e6-748033658981 5 155390658 155391219 3 -0.9937
|
| 27 |
+
4652a235-4441-4960-83e6-748033658981 5 155394215 180934240 15719 0.0173
|
| 28 |
+
4652a235-4441-4960-83e6-748033658981 6 1011760 121484587 67482 0.0151
|
| 29 |
+
4652a235-4441-4960-83e6-748033658981 6 121488873 121490376 4 -1.1675
|
| 30 |
+
4652a235-4441-4960-83e6-748033658981 6 121492181 170596889 29719 0.0147
|
| 31 |
+
4652a235-4441-4960-83e6-748033658981 7 664936 158592540 81970 0.0154
|
| 32 |
+
4652a235-4441-4960-83e6-748033658981 8 667625 1265445 174 0.0432
|
| 33 |
+
4652a235-4441-4960-83e6-748033658981 8 1268533 1268596 2 -1.3788
|
| 34 |
+
4652a235-4441-4960-83e6-748033658981 8 1270024 40061462 23015 0.0172
|
| 35 |
+
4652a235-4441-4960-83e6-748033658981 8 40062496 40063676 2 -1.4046
|
| 36 |
+
4652a235-4441-4960-83e6-748033658981 8 40066499 42332060 1590 0.0106
|
| 37 |
+
4652a235-4441-4960-83e6-748033658981 8 42332201 42336024 4 0.8115
|
| 38 |
+
4652a235-4441-4960-83e6-748033658981 8 42341917 43012035 294 0.0371
|
| 39 |
+
4652a235-4441-4960-83e6-748033658981 8 43013908 43014849 2 -1.4781
|
| 40 |
+
4652a235-4441-4960-83e6-748033658981 8 43018574 144182542 57178 0.0125
|
| 41 |
+
4652a235-4441-4960-83e6-748033658981 9 789794 138044505 68514 0.0141
|
| 42 |
+
4652a235-4441-4960-83e6-748033658981 10 366509 133411599 81335 0.0165
|
| 43 |
+
4652a235-4441-4960-83e6-748033658981 11 456012 134272740 77602 0.0143
|
| 44 |
+
4652a235-4441-4960-83e6-748033658981 12 780472 132605822 74367 0.0166
|
| 45 |
+
4652a235-4441-4960-83e6-748033658981 13 18874255 40465840 13870 0.0153
|
| 46 |
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processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-BRCA.e5ab2046-c8a8-4636-865c-c92d6b3da823.absolute_liftover.gene_level_copy_number.v36.tsv
ADDED
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processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-BRCA.e5ab2046-c8a8-4636-865c-c92d6b3da823.ascat3.gene_level_copy_number.v36.tsv
ADDED
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processed_otsu/01f50abf-fc15-446e-9d07-edeecc545a32_TCGA-E2-A155-01A-01-TSA.555fff50-3656-4fe1-bd55-867efffc6ae0_mask.png
ADDED
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Git LFS Details
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