Auto-upload batch data to clear storage

.gitattributes

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data/__notebook__.ipynb

@@ -46584,6 +46584,1775 @@
      },
      "metadata": {},
      "output_type": "display_data"
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "-> Upload thành công!\n",
+      "-> Đang xóa dữ liệu local để giải phóng bộ nhớ...\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "-> Đã làm trống thư mục. Dung lượng hiện tại: 0.00 GB\n",
+      "--------------------------------------------------\n",
+      "[5656/10000] (15.01GB) Downloading: TCGA-D8-A27E-01A-01-TSA.48a9ccf5-588d-4f44-a026-2ba63d43c5fd.svs (134.81 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5657/10000] (0.13GB) Downloading: nationwidechildrens.org_ssf.TCGA-4H-AAAK.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5658/10000] (0.13GB) Downloading: 1f43341d-c5ef-4edd-8bf0-f07dc067d5c2_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5659/10000] (0.13GB) Downloading: TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_C12_1513178.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5660/10000] (0.13GB) Downloading: 308e15c9-16b0-4f24-b9dc-e9dc91038579.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5661/10000] (0.14GB) Downloading: 03e69dc1-ccd9-41a8-96e3-b2f9dc4d64cd.methylation_array.sesame.level3betas.txt (0.74 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5662/10000] (0.14GB) Downloading: TCGA-A1-A0SO-01A-11-A13A-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5663/10000] (0.14GB) Downloading: TCGA-A7-A0CE-01A-01-TS1.3025a9c8-a7e4-4048-bcf0-a28720c0f96b.svs (434.82 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5664/10000] (0.56GB) Downloading: TCGA-A7-A0CE-11A-02-BS2.2c324d8a-4f5a-4fa1-a779-5ff38fe8a52f.svs (135.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5665/10000] (0.69GB) Downloading: SHAWM_p_TCGAb72_SNP_N_GenomeWideSNP_6_F07_697996.nocnv_grch38.seg.v2.txt (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5666/10000] (0.69GB) Downloading: nationwidechildrens.org_clinical.TCGA-D8-A27E.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5667/10000] (0.69GB) Downloading: TCGA-D8-A1XO.9AAB53EC-89A0-4878-BB9D-D96BC56B54C4.PDF (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5668/10000] (0.69GB) Downloading: nationwidechildrens.org_clinical.TCGA-A1-A0SO.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5669/10000] (0.69GB) Downloading: 0b515b8a-b1ab-4508-8185-952fb73d9bf0.wxs.aliquot_ensemble_masked.maf.gz (0.10 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5670/10000] (0.70GB) Downloading: 152cf2fc-15cf-4d68-b0b0-1aa8b98cfbc6.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5671/10000] (0.70GB) Downloading: TCGA-D8-A27E.36F6CB19-17FE-47FA-BFCA-3846578C028B.PDF (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5672/10000] (0.70GB) Downloading: TCGA-A7-A0CE-01A-21-A13A-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5673/10000] (0.70GB) Downloading: 919c05b9-7b6e-4a0e-9cbb-e25ef27984c7.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5674/10000] (0.70GB) Downloading: 152cf2fc-15cf-4d68-b0b0-1aa8b98cfbc6.mirbase21.isoforms.quantification.txt (0.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5675/10000] (0.70GB) Downloading: 5f5405b8-f259-4935-a670-a343223cb522.methylation_array.sesame.level3betas.txt (12.36 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5676/10000] (0.71GB) Downloading: TCGA-A2-A4S2.4A5630FF-0ADC-4E69-B22A-02F1F34F61F9.PDF (0.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5677/10000] (0.71GB) Downloading: 5f5405b8-f259-4935-a670-a343223cb522_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5678/10000] (0.72GB) Downloading: TCGA-A1-A0SO-01A-02-TSB.e5de770e-4ff4-47ad-b5e4-04753c1a6507.svs (221.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5679/10000] (0.93GB) Downloading: 2e44dfdb-aafd-4d56-9420-658db0f63246.methylation_array.sesame.level3betas.txt (0.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5680/10000] (0.93GB) Downloading: ceb1e65a-a14d-4177-aadd-6fbf0b9155c0_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5681/10000] (0.94GB) Downloading: TCGA-A8-A06O-01A-11D-A89H-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5682/10000] (0.94GB) Downloading: TCGA-BRCA.8c74f209-9286-4af4-8c65-61801d2aa47e.ascat2.allelic_specific.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5683/10000] (0.94GB) Downloading: SHAWM_p_TCGAb72_SNP_N_GenomeWideSNP_6_B12_698074.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5684/10000] (0.94GB) Downloading: 50879004-d3d4-4345-aab1-24a9ef0ac405.mirbase21.isoforms.quantification.txt (0.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5685/10000] (0.94GB) Downloading: DLP_REDO_FROM_MOHEL_A03.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5686/10000] (0.94GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A2-A4S2.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5687/10000] (0.94GB) Downloading: e4be68bd-3e5d-4f67-839f-2d95987f55b3.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5688/10000] (0.94GB) Downloading: TCGA-BRCA.0323e53c-a64f-426b-9f8e-f76b6bdf6118.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5689/10000] (0.94GB) Downloading: TCGA-D8-A1XO-01Z-00-DX1.A9EF6AFF-62B0-4E2D-ABC7-DC06FF473890.svs (1238.88 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5690/10000] (2.15GB) Downloading: nationwidechildrens.org_ssf.TCGA-A2-A4S2.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5691/10000] (2.15GB) Downloading: 23a0423a-32d4-41d4-bc14-f47465d738ac.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5692/10000] (2.15GB) Downloading: TCGA-BRCA.dc99456b-c429-4e33-8ceb-26dd8d43b78a.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5693/10000] (2.16GB) Downloading: 166ef603-11a0-4023-bdc3-27012c52a90c_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5694/10000] (2.16GB) Downloading: TCGA-C8-A8HQ-01A-01D-A89F-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5695/10000] (2.16GB) Downloading: TCGA-BH-A18N-01A-21-A13E-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5696/10000] (2.16GB) Downloading: TCGA-BH-A1F2-11A-03-TSC.ef500ca2-7215-4451-8edf-4c67ebb535a6.svs (67.96 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5697/10000] (2.22GB) Downloading: nationwidechildrens.org_clinical.TCGA-BH-A18N.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5698/10000] (2.22GB) Downloading: 231b3be8-60ee-4ecf-8beb-f9606376ecb4.methylation_array.sesame.level3betas.txt (0.74 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5699/10000] (2.22GB) Downloading: c0ecf541-285b-4344-b93b-0c7893d5fdcf.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5700/10000] (2.22GB) Downloading: TCGA-BRCA.40ef83f0-cb32-4191-a440-3fcc76d1148f.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5701/10000] (2.23GB) Downloading: TCGA-A7-A0CH-01A-11-A13A-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5702/10000] (2.23GB) Downloading: TCGA-A7-A0CH-01Z-00-DX1.48ADDD0B-527A-404C-B794-7D7D35BF861F.svs (383.71 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5703/10000] (2.60GB) Downloading: edd37da2-cdb9-4476-847b-61b1f2d6e166_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5704/10000] (2.61GB) Downloading: TCGA-BRCA.82f1dfdc-1d68-4dd2-b933-80961316de23.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5705/10000] (2.61GB) Downloading: nationwidechildrens.org_clinical.TCGA-GM-A2DI.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5706/10000] (2.61GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-GM-A2DI.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5707/10000] (2.61GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-C8-A8HQ.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5708/10000] (2.61GB) Downloading: TCGA-GM-A2DI-11A-01-TS1.5AAFFC9A-95D8-4C42-9A67-669D35EC6C95.svs (42.22 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5709/10000] (2.65GB) Downloading: 8f009c0c-5f4a-453e-8f09-5576a11c2462_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5710/10000] (2.66GB) Downloading: a2be2fb2-a488-4ff8-8c6f-a44d6a7cca91.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5711/10000] (2.66GB) Downloading: nationwidechildrens.org_clinical.TCGA-BH-A1F2.xml (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5712/10000] (2.66GB) Downloading: GHOUL_p_TCGASNP_b85and51R_N_GenomeWideSNP_6_H07_735294.nocnv_grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5713/10000] (2.66GB) Downloading: TCGA-BRCA.b24caa7b-337e-43d0-9908-2815f24dd7b5.ascat2.allelic_specific.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5714/10000] (2.66GB) Downloading: nationwidechildrens.org_ssf.TCGA-C8-A12W.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5715/10000] (2.66GB) Downloading: 650a7a01-faf2-43f3-924c-bdd7b9914294.mirbase21.isoforms.quantification.txt (0.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5716/10000] (2.66GB) Downloading: f88685b7-0044-4d8e-ac7c-f9a232fb6d5d.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5717/10000] (2.66GB) Downloading: GHOUL_p_TCGASNP_b85and51R_N_GenomeWideSNP_6_F07_735358.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5718/10000] (2.66GB) Downloading: CELLA_p_TCGA_177_179_Esph_SNP_N_GenomeWideSNP_6_D09_871112.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5719/10000] (2.66GB) Downloading: 139c0f7b-8b5b-4717-a24e-4b7e9b1ef711.mirbase21.isoforms.quantification.txt (0.46 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5720/10000] (2.66GB) Downloading: a8d1fa39-1cb2-421d-8504-09ed68f2ef60.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5721/10000] (2.66GB) Downloading: TCGA-C8-A12W-01A-01-TSA.763f7b10-e613-4d9a-be67-4329e670f882.svs (612.89 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5722/10000] (3.26GB) Downloading: TCGA-BRCA.10a3bfcd-1650-480e-a3eb-f72d6ae052fe.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5723/10000] (3.26GB) Downloading: 8c40c51b-d016-4b35-8b2e-4349f5d7d6cf_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5724/10000] (3.26GB) Downloading: TCGA-B6-A0RU-01A-01-TSA.5ebcec19-7518-4852-9852-2df2f345a95e.svs (81.93 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5725/10000] (3.34GB) Downloading: 57b6106d-4dea-4047-a6b9-2e154c87bd06.methylation_array.sesame.level3betas.txt (12.57 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5726/10000] (3.35GB) Downloading: nationwidechildrens.org_clinical.TCGA-AR-A24W.xml (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5727/10000] (3.35GB) Downloading: 57b6106d-4dea-4047-a6b9-2e154c87bd06_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5728/10000] (3.36GB) Downloading: TCGA-BRCA.39df545d-dade-4342-8ac3-312fd5664692.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5729/10000] (3.36GB) Downloading: 269b4c7d-4921-4865-85b7-d77e98a1e09b.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5730/10000] (3.36GB) Downloading: TCGA-BRCA.b24caa7b-337e-43d0-9908-2815f24dd7b5.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5731/10000] (3.37GB) Downloading: 9ba58b57-57fa-4a5f-82a1-5731dbe9192c.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5732/10000] (3.37GB) Downloading: 06070786-4f18-4ebd-afdc-837af04198b5_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5733/10000] (3.37GB) Downloading: 96e01bc7-9e1c-4cfb-99f3-520549bc88a7.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5734/10000] (3.37GB) Downloading: BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_F07_780894.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5735/10000] (3.37GB) Downloading: TCGA-E9-A1N4-11A-02-TSB.4ade0518-9888-4ee2-98ba-ccf8e57bd39d.svs (38.26 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5736/10000] (3.41GB) Downloading: TCGA-E9-A1N4-01A-01-TSA.c0e20e54-baab-4dd4-98c8-3e450a41ea86.svs (158.46 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5737/10000] (3.57GB) Downloading: TCGA-BRCA.fa523b14-e71e-4e6f-a1f3-b445af1ff788.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5738/10000] (3.57GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-E9-A1N4.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5739/10000] (3.57GB) Downloading: nationwidechildrens.org_ssf.TCGA-A7-A3IY.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5740/10000] (3.57GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A7-A3IY.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5741/10000] (3.57GB) Downloading: TCGA-A7-A3IY-01Z-00-DX1.B4E75265-3B2A-456C-996A-F95B5A645BF8.svs (211.22 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5742/10000] (3.77GB) Downloading: TCGA-A7-A13G-01A-01-BS1.0f72aeb4-0052-486f-9305-449200e92028.svs (299.19 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5743/10000] (4.07GB) Downloading: TCGA-A7-A13G-11A-05-TS5.13f71f7b-775c-4e05-a055-8d54cc3b6e46.svs (98.65 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5744/10000] (4.16GB) Downloading: TCGA-A7-A3IY.63F5F3D8-6393-4DA7-BB74-7D587199D7FD.PDF (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5745/10000] (4.16GB) Downloading: 3748743e-5ce4-4462-89fb-05f16018cd4d_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5746/10000] (4.17GB) Downloading: f69e6f47-094c-4511-981d-e130ece93431_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5747/10000] (4.18GB) Downloading: TCGA-BRCA.cab482fe-e5e3-438a-8ece-322111d17c4b.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5748/10000] (4.18GB) Downloading: TCGA-E9-A1N4-11A-04-TSD.fa134061-83d9-4fe7-9f9c-58811a961d24.svs (40.17 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5749/10000] (4.22GB) Downloading: RANDS_p_TCGA_b109_SNP_1N_GenomeWideSNP_6_A01_771906.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5750/10000] (4.22GB) Downloading: nationwidechildrens.org_ssf.TCGA-C8-A12K.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5751/10000] (4.22GB) Downloading: 1cbbe329-a471-425e-b14d-e9043fce6926.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5752/10000] (4.23GB) Downloading: GHOUL_p_TCGASNP_b85and51R_N_GenomeWideSNP_6_C01_735380.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5753/10000] (4.23GB) Downloading: TCGA-A7-A13G.50782829-35B6-4A61-A3CE-F105A31EDB42.PDF (0.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5754/10000] (4.23GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-C8-A12K.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5755/10000] (4.23GB) Downloading: TCGA-BRCA.0ad8db08-453f-4b99-9bff-4c463648a8f6.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5756/10000] (4.23GB) Downloading: BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_F08_780882.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5757/10000] (4.23GB) Downloading: TCGA-BRCA.4588244d-e5f9-4cad-9915-1c6f4c0f887c.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5758/10000] (4.23GB) Downloading: 52e137e9-1380-464a-9955-25e9003c9613_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5759/10000] (4.23GB) Downloading: 4c8d6813-7e2a-4331-aed5-bc9b854e1d2f.mirbase21.isoforms.quantification.txt (0.39 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5760/10000] (4.23GB) Downloading: 1ed2bfa7-9b18-49ac-9685-be657741ecde_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.14 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5761/10000] (4.23GB) Downloading: TCGA-C8-A12K.149E102C-FE01-4FC0-8410-CD9743CAFA15.PDF (0.20 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5762/10000] (4.23GB) Downloading: nationwidechildrens.org_clinical.TCGA-LL-A441.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5763/10000] (4.23GB) Downloading: GHOUL_p_TCGASNP_b85and51R_N_GenomeWideSNP_6_C01_735380.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5764/10000] (4.23GB) Downloading: CROZE_p_TCGA_254_256_255_N_GenomeWideSNP_6_A07_1301472.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5765/10000] (4.23GB) Downloading: TCGA-BRCA.cab482fe-e5e3-438a-8ece-322111d17c4b.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5766/10000] (4.23GB) Downloading: nationwidechildrens.org_ssf.TCGA-BH-A18V.xml (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5767/10000] (4.23GB) Downloading: RANDS_p_TCGA_b109_SNP_1N_GenomeWideSNP_6_A11_771896.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5768/10000] (4.23GB) Downloading: 1f5a3716-6527-4772-a05d-a33478f2a87e.methylation_array.sesame.level3betas.txt (12.55 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5769/10000] (4.25GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-LL-A441.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5770/10000] (4.25GB) Downloading: CROZE_p_TCGA_254_256_255_N_GenomeWideSNP_6_A07_1301472.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5771/10000] (4.25GB) Downloading: TCGA-BRCA.4588244d-e5f9-4cad-9915-1c6f4c0f887c.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5772/10000] (4.25GB) Downloading: TCGA-BH-A42T-01Z-00-DX1.6E4609B9-BE7E-4CA9-A1C0-A77A7DEFBB2B.svs (1134.53 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5773/10000] (5.36GB) Downloading: a7661078-0187-48ae-9ecc-0bd522da1cb3.methylation_array.sesame.level3betas.txt (12.55 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5774/10000] (5.37GB) Downloading: TCGA-BH-A18V-11A-05-TSE.e0ed4c5f-4c86-4837-a29f-3c5426ebb2b9.svs (105.36 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5775/10000] (5.47GB) Downloading: nationwidechildrens.org_ssf.TCGA-BH-A42T.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5776/10000] (5.47GB) Downloading: 7e77594d-b56c-4ada-b27e-a9aac501065e.methylation_array.sesame.level3betas.txt (0.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5777/10000] (5.47GB) Downloading: TCGA-BH-A0H3-01A-01-MSA.32ba4ab2-1d6a-4927-953f-2801f2d216e6.svs (684.52 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5778/10000] (6.14GB) Downloading: TCGA-BH-A42T-01A-01-TSA.2DE6520B-22F3-49A6-9C06-FDAEC456AEC2.svs (627.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5779/10000] (6.75GB) Downloading: TCGA-BH-A0H3-11A-01-TSA.1720d8fc-722f-435e-8e65-722ab5865bfe.svs (59.32 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5780/10000] (6.81GB) Downloading: 6f43013b-11db-4fde-a8a4-0cc2b6f11855.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5781/10000] (6.81GB) Downloading: a7661078-0187-48ae-9ecc-0bd522da1cb3_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5782/10000] (6.82GB) Downloading: TCGA-BRCA.836dd390-a9e4-416f-b0e1-a9fdb37155ab.ascat2.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5783/10000] (6.82GB) Downloading: TCGA-BH-A42T.3FFD87C3-1E75-4A8E-AA26-BF7995E42245.PDF (0.16 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5784/10000] (6.82GB) Downloading: d4f91697-1c39-4398-bf2f-85217a22ddff.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5785/10000] (6.82GB) Downloading: TCGA-BH-A0H3-01A-11D-A891-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5786/10000] (6.82GB) Downloading: TCGA-BH-A18V-11A-03-TSC.18ff74d9-eac0-401e-ac2d-8511f81b5e28.svs (75.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5787/10000] (6.90GB) Downloading: CROZE_p_TCGA_254_256_255_N_GenomeWideSNP_6_C03_1301448.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5788/10000] (6.90GB) Downloading: nationwidechildrens.org_clinical.TCGA-BH-A42T.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5789/10000] (6.90GB) Downloading: TCGA-BRCA.245f6917-4912-4707-9289-d4bc54345b81.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5790/10000] (6.90GB) Downloading: TCGA-BRCA.5ed36cde-08a1-439e-8b03-7ed3fbddbacf.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5791/10000] (6.90GB) Downloading: COZEN_p_TCGAb56_SNP_2N_GenomeWideSNP_6_E10_667208.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5792/10000] (6.90GB) Downloading: TCGA-AN-A0FS-01Z-00-DX1.104368C2-28DA-4E43-8B27-78336AD5ABC8.svs (598.24 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5793/10000] (7.48GB) Downloading: TCGA-AN-A0FS-01A-11D-A891-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5794/10000] (7.48GB) Downloading: JOUAL_p_TCGA_b96_SNP_N_GenomeWideSNP_6_E04_747942.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5795/10000] (7.48GB) Downloading: e20191d9-fddf-47a3-9ff9-d4a36af7d762.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5796/10000] (7.49GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-BH-A0H3.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5797/10000] (7.49GB) Downloading: TCGA-AN-A0FS.3CD1D537-29E4-479B-99FA-26D27E192948.PDF (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5798/10000] (7.49GB) Downloading: f07e3d29-7f87-48ff-b015-4cf8ca0d35a7.methylation_array.sesame.level3betas.txt (0.74 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5799/10000] (7.49GB) Downloading: 01f3f68f-d5ce-4dff-adc6-e3c3014169a5_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5800/10000] (7.50GB) Downloading: COZEN_p_TCGAb56_SNP_2N_GenomeWideSNP_6_F08_667166.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5801/10000] (7.50GB) Downloading: TCGA-AN-A0FS-01A-01-BSA.030e8ca6-2dd3-41ad-aae4-e69b803dbcaa.svs (207.48 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5802/10000] (7.70GB) Downloading: TCGA-BRCA.245f6917-4912-4707-9289-d4bc54345b81.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5803/10000] (7.70GB) Downloading: TCGA-BRCA.245f6917-4912-4707-9289-d4bc54345b81.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5804/10000] (7.71GB) Downloading: 608133e8-66bb-48ba-8b0e-3533a8d28472_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5805/10000] (7.71GB) Downloading: TCGA-BRCA.245f6917-4912-4707-9289-d4bc54345b81.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5806/10000] (7.71GB) Downloading: 2cda1e79-db79-4664-bf72-2e8327b61ae2.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5807/10000] (7.71GB) Downloading: 60121ce1-f24b-4eff-8bce-5d3378c72207.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5808/10000] (7.71GB) Downloading: 25c886ce-195e-4d75-97a2-69a23839c168.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5809/10000] (7.71GB) Downloading: 608133e8-66bb-48ba-8b0e-3533a8d28472_noid_Red.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5810/10000] (7.71GB) Downloading: 624c2427-81c7-454e-a710-07cd0d936ff4.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5811/10000] (7.71GB) Downloading: TCGA-BRCA.be8500f8-6446-4f52-aa16-2ac597e6eb68.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5812/10000] (7.71GB) Downloading: TCGA-LL-A5YP-01Z-00-DX1.ADA978DF-6625-4C4D-AE0C-F589B2BA4897.svs (1091.60 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5813/10000] (8.78GB) Downloading: TCGA-GM-A2D9-11A-04-TS4.2FDE6729-0201-4573-8348-460EE1DBEE67.svs (27.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5814/10000] (8.80GB) Downloading: CELLA_p_TCGA_177_179_Esph_SNP_N_GenomeWideSNP_6_D06_871124.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5815/10000] (8.80GB) Downloading: TCGA-BRCA.1fcd4cc6-e594-415c-956a-a65c309fa105.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5816/10000] (8.81GB) Downloading: 3242c34e-f020-4e02-9e70-a7ef0af125b4.wxs.aliquot_ensemble_masked.maf.gz (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5817/10000] (8.81GB) Downloading: TCGA-BRCA.1fcd4cc6-e594-415c-956a-a65c309fa105.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5818/10000] (8.81GB) Downloading: 58e68bce-e7cd-4eaf-a032-dc52853d9e27_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5819/10000] (8.82GB) Downloading: nationwidechildrens.org_clinical.TCGA-GM-A2D9.xml (0.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5820/10000] (8.82GB) Downloading: TCGA-LL-A5YP.B6B4DCFE-F044-44D6-BB90-EF71E6981E82.PDF (0.48 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5821/10000] (8.82GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-V7-A7HQ.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5822/10000] (8.82GB) Downloading: COPAL_p_TCGAb_337_338_339_NSP_GenomeWideSNP_6_F05_1373606.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5823/10000] (8.82GB) Downloading: CELLA_p_TCGA_177_179_Esph_SNP_N_GenomeWideSNP_6_E05_871108.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5824/10000] (8.82GB) Downloading: DRIPS_p_TCGA_295_296_297_N_GenomeWideSNP_6_A02_1343748.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5825/10000] (8.82GB) Downloading: TCGA-V7-A7HQ-01A-01-TS1.C4700F73-F50C-4E8C-8C2E-909A914A9413.svs (194.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5826/10000] (9.01GB) Downloading: TCGA-BRCA.de637c67-c60e-4b6f-99cf-0bcef33204cc.ascat2.allelic_specific.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5827/10000] (9.01GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_A04_777990.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5828/10000] (9.01GB) Downloading: TCGA-E2-A1II.4F2A288E-8162-4579-BCD2-0FF31B0EEB3C.PDF (0.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5829/10000] (9.01GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_F10_778066.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5830/10000] (9.01GB) Downloading: TCGA-BRCA.bb949708-34dc-48db-94db-c438ce611f57.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5831/10000] (9.01GB) Downloading: d28fcbf7-96d8-491a-ad39-880890682e05_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5832/10000] (9.02GB) Downloading: 55a058c7-728a-4675-85cc-1b2d840ec24a_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5833/10000] (9.02GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_F10_778066.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5834/10000] (9.02GB) Downloading: 94d16d67-a127-4173-af48-204144c8b336_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5835/10000] (9.03GB) Downloading: TCGA-GM-A2D9-01A-01-TS1.640CA05F-D91E-406B-BFD4-B04441C9C811.svs (245.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5836/10000] (9.27GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_A04_777990.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5837/10000] (9.27GB) Downloading: TCGA-E2-A1II-01Z-00-DX1.7F782477-0F92-4C57-8735-A1E3F95A6B94.svs (740.60 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5838/10000] (9.99GB) Downloading: TCGA-BRCA.bb56f0b4-2c20-4ca7-bc85-8f7cc13d5458.ascat2.allelic_specific.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5839/10000] (9.99GB) Downloading: RAMIE_p_6TCGA_250_232_4_236_N_GenomeWideSNP_6_F10_1245206.grch38.seg.v2.txt (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5840/10000] (9.99GB) Downloading: TCGA-GM-A3XL-01Z-00-DX1.CCE8AA1D-9194-4E49-9546-DBF25A35847C.svs (754.61 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5841/10000] (10.73GB) Downloading: TCGA-E2-A1II-01A-11D-A896-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5842/10000] (10.73GB) Downloading: nationwidechildrens.org_ssf.TCGA-E2-A1II.xml (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5843/10000] (10.73GB) Downloading: TCGA-E2-A1II-01A-01-TSA.b8bb5828-b6a3-45e3-bd16-27722e9fa705.svs (340.68 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5844/10000] (11.06GB) Downloading: nationwidechildrens.org_clinical.TCGA-E2-A1II.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5845/10000] (11.06GB) Downloading: BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_F05_780926.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5846/10000] (11.06GB) Downloading: TCGA-D8-A1JE-01Z-00-DX2.CCF3DFEF-E851-425A-BCD0-0F7B377A00BC.svs (835.59 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5847/10000] (11.88GB) Downloading: nationwidechildrens.org_ssf.TCGA-GM-A3XL.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5848/10000] (11.88GB) Downloading: TCGA-BRCA.58be3d70-17bf-423e-86af-fd13b6b792a2.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5849/10000] (11.88GB) Downloading: TCGA-D8-A1JE-01Z-00-DX1.714805A1-E337-46DA-88D9-6CE4B4E3C2D0.svs (1966.38 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5850/10000] (13.80GB) Downloading: 3d57bf69-1ff4-4050-a873-1fa6eeb4038b_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5851/10000] (13.81GB) Downloading: RAMIE_p_6TCGA_250_232_4_236_N_GenomeWideSNP_6_F10_1245206.nocnv_grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5852/10000] (13.81GB) Downloading: TCGA-BRCA.ff8bc49a-9c34-45ab-864b-0e052fd6e594.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5853/10000] (13.81GB) Downloading: 0266681b-6a04-4dc4-a1be-296a42ab33d4.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5854/10000] (13.81GB) Downloading: 8e74d910-4df8-491f-a783-64c23aeda50d.wgs.ASCAT.gene_level.copy_number_variation.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5855/10000] (13.81GB) Downloading: 41321e81-2d74-43df-92b4-719a8b49d1c3_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5856/10000] (13.82GB) Downloading: 5efd4620-81d3-4d9f-9741-6ec09f9a3c3b.mirbase21.isoforms.quantification.txt (0.43 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5857/10000] (13.82GB) Downloading: TCGA-BRCA.ff8bc49a-9c34-45ab-864b-0e052fd6e594.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5858/10000] (13.82GB) Downloading: TCGA-E2-A1IU-11A-02-TSB.b1e1d4f0-7a97-4a67-a15f-667ba0454e31.svs (141.39 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5859/10000] (13.96GB) Downloading: b188b8ae-d5f0-441e-94cb-2eacc8e4507d.methylation_array.sesame.level3betas.txt (12.56 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5860/10000] (13.97GB) Downloading: d1a74583-ed45-48e8-a345-7e679f0f13ab.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5861/10000] (13.97GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-E2-A1IU.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5862/10000] (13.97GB) Downloading: TCGA-E2-A1IU-01A-21-A17J-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5863/10000] (13.97GB) Downloading: b188b8ae-d5f0-441e-94cb-2eacc8e4507d_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5864/10000] (13.98GB) Downloading: TCGA-E2-A1IU-11A-06-TSF.96609ca3-27d5-47b7-a3b2-9f658b24a26b.svs (55.70 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5865/10000] (14.03GB) Downloading: BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_F02_697020.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5866/10000] (14.03GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-D8-A1XS.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5867/10000] (14.03GB) Downloading: 0c97049a-7e63-4143-877f-0a06e25cba07_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5868/10000] (14.04GB) Downloading: WRIED_p_TCGA_143_147_150_Hahn_N_GenomeWideSNP_6_B02_799972.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5869/10000] (14.04GB) Downloading: TCGA-D8-A27T-01Z-00-DX1.1E3A4D57-9CF2-4EBF-B74D-ADD7BD8CBFA5.svs (1214.78 MB)... "
+     ]
+    },
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "It seems you are trying to upload a large folder at once. This might take some time and then fail if the folder is too large. For such cases, it is recommended to upload in smaller batches or to use `HfApi().upload_large_folder(...)`/`hf upload-large-folder` instead. For more details, check out https://huggingface.co/docs/huggingface_hub/main/en/guides/upload#upload-a-large-folder.\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "\n",
+      "!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!\n",
+      "C��NH BÁO: Dung lượng đã đạt giới hạn (15.23 GB).\n",
+      "Đang tiến hành upload lên Hugging Face và giải phóng bộ nhớ...\n",
+      "!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!\n",
+      "\n"
+     ]
+    },
+    {
+     "data": {
+      "application/vnd.jupyter.widget-view+json": {
+       "model_id": "39c0666ae7324339a5ba76193c031f31",
+       "version_major": 2,
+       "version_minor": 0
+      },
+      "text/plain": [
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data/gdc_data_organized/001cef41-ff86-4d3f-a140-a647ac4b10a1/TCGA-E2-A1IU-01A-21-A17J-20_RPPA_data.tsv

@@ -0,0 +1,488 @@
+AGID	lab_id	catalog_number	set_id	peptide_target	protein_expression
+AGID00100	882	sc-628	Old	1433BETA	0.34024
+AGID00111	913	sc-23957	Old	1433EPSILON	0.1109
+AGID00101	883	sc-1019	Old	1433ZETA	-0.2574
+AGID00001	2	9452	Old	4EBP1	-0.45185
+AGID00002	3	9456	Old	4EBP1_pS65	-0.23081
+AGID00003	6	9459	Old	4EBP1_pT37T46	-0.34048
+AGID00443	8	9455	Old	4EBP1_pT70	-0.14381
+AGID00120	985	4937	Old	53BP1	-0.37567
+AGID00004	13	3661	Old	ACC_pS79	0.39427
+AGID00005	14	1768-1/ab45174	Old	ACC1	-0.12185
+AGID00408	2372	3658	Set163	AceCS1	1.139889
+AGID00473	1182	5335	Old	ACETYLATUBULINLYS40	-0.35215
+AGID00404	2367	9189	Set163	ACSL1	0.95836
+AGID02144	2450	PA5-27081	Old	ACVRL1	0.293
+AGID00186	1198	ab88574	Old	ADAR1	-0.35869
+AGID00146	1084	4691	Old	AKT	-0.13014
+AGID00028	230	9271	Old	AKT_pS473	-0.26159
+AGID00170	1154	2965	Old	AKT_pT308	-0.17857
+AGID00316	1800	3063	Set163	Akt2	-0.043915
+AGID00347	2009	8599	Set163	Akt2_pS474	0.2061194
+AGID02215	2577	ab195377	Set163	ALKBH5	-0.2702552
+AGID00498	924	CA1030	Old	ALPHACATENIN	NA
+AGID00287	1630	ABC80	Set163	Ambra1_pS52	-0.2160558
+AGID00236	1351	ab129081	Set163	AMPK-a2_pS345	-0.3363451
+AGID00006	39	2532	Old	AMPKALPHA	-0.048039
+AGID00007	40	2535	Old	AMPKALPHA_pT172	0.18569
+AGID00193	1208	610066	Old	ANNEXIN1	0.08689
+AGID00166	1142	610668	Old	ANNEXINVII	0.32329
+AGID00371	756	1852-1/ab52615	Old	AR	1.1058
+AGID00194	1217	4432	Old	ARAF	0.31757
+AGID02191	2507	PA5-39728	Old	ARAF_pS299	-0.068968
+AGID00260	1053	sc-32761	Old	ARID1A	-0.12098
+AGID00264	1560	HPA029318	Old	ASNS	-0.74493
+AGID00276	1612	3415	Set163	Atg3	-0.1434501
+AGID00309	1775	13507	Set163	Atg4B	0.2387895
+AGID00310	1776	12994	Set163	Atg5	0.2499499
+AGID00277	1613	8558	Set163	Atg7	0
+AGID00242	1363	2873	Old	ATM	-0.70314
+AGID02142	2447	13050	Set163	ATM_pS1981	-0.03631514
+AGID00217	1289	ab14748	Set163	ATP5A	-0.2531006
+AGID02145	2451	PA5-43776	Set163	ATP5H	0.657345
+AGID02150	2456	13934	Set163	ATR	0.389667
+AGID00315	1795	ab178407	Set163	ATR_pS428	-0.7881663
+AGID00268	1569	ab97508	Set163	ATRX	-0.9290926
+AGID00391	2332	14475	Set163	Aurora-A	-0.0558
+AGID00392	2333	2914	Set163	Aurora-ABC_pT288_pT232_pT198	0.02854001
+AGID02195	2512	MA5-27890	Set163	Aurora-B	-0.3129963
+AGID00215	1271	8661	Old	AXL	0.47202
+AGID02143	2449	8457	Set163	b-Actin	0.5009797
+AGID00179	1170	9565	Set163	b-Catenin_pT41_S45	0.316865
+AGID00301	1725	14058	Set163	B7-H3	0.08253909
+AGID00302	1726	14572	Set163	B7-H4	0.07551467
+AGID00008	63	9291	Old	BAD_pS112	-0.11403
+AGID00009	71	1542-1/ab32371	Old	BAK	0.24706
+AGID00192	1207	sc-28383	Old	BAP1C4	-0.42018
+AGID00010	73	2772	Old	BAX	0.14657
+AGID00433	80	M0887	Old	BCL2	1.5014
+AGID00219	1299	PAB8528	Old	BCL2A1	0.44272
+AGID00012	84	1018-1	Old	BCLXL	-0.1469
+AGID00377	87	sc-10086	Old	BECLIN	-0.15858
+AGID00011	75	9562	Old	BETACATENIN	-0.31408
+AGID00013	88	1008-1/ab32060	Old	BID	0.44145
+AGID00180	90	1036-1/ab32158	Old	BIM	1.0071
+AGID00221	1311	610978	Set163	BiP-GRP78	-0.2728756
+AGID00373	2194	07-507	Set163	BMK1-Erk5_pT218_Y220	-0.35418
+AGID00355	92	1647/ab33899	Old	BRAF	-0.50501
+AGID00014	94	2696	Old	BRAF_pS445	0.044423
+AGID00445	761	9012	Old	BRCA2	0.024903
+AGID00266	1567	13440	Old	BRD4	-0.43906
+AGID00168	1146	2865	Set163	c-Abl_pY412	0.6091193
+AGID00278	1615	3130	Set163	c-IAP2	-0.1982251
+AGID00345	1990	5649	Old	CA9	NA
+AGID00265	1565	2862	Old	CABL	0.083565
+AGID00429	2407	2679	Set163	Calnexin	0.6228297
+AGID00176	1165	9496	Set163	Caspase-8-cleaved	0.7061849
+AGID00623	111	9665	Old	CASPASE3	-0.40222
+AGID00015	109	9491	Old	CASPASE7CLEAVEDD198	-0.55373
+AGID00118	951	9746	Old	CASPASE8	0.14419
+AGID00537	935	551246	Old	CASPASE9	NA
+AGID00016	114	3238	Old	CAVEOLIN1	0.90586
+AGID00358	2100	ab76000	Set163	CD134	0.5661886
+AGID00303	1737	826701	Set163	CD171	-0.74543
+AGID00410	125	1632-1/ab78237	Old	CD20	0.20184
+AGID00220	1308	ab28340	Old	CD26	0.29684
+AGID00191	1206	610467	Set163	CD29	-0.2031404
+AGID00017	127	M0823	Old	CD31	0.16488
+AGID00369	2174	ab108403	Set163	CD38	0.69394
+AGID00359	2104	ab133616	Set163	CD4	0.9618687
+AGID00411	1398	3570	Set163	CD44	0.2804549
+AGID00237	1352	M070101-2	Set163	CD45	0.1032998
+AGID00115	937	611016	Old	CD49B	-0.025778
+AGID02171	2482	91882	Set163	CD86	0.09959999
+AGID00329	1873	4688	Set163	cdc25C	-0.581915
+AGID00227	1332	4651	Set163	Cdc42	0.08997978
+AGID00422	2396	3387	Set163	Cdc6	0.5154799
+AGID00501	1007	9112	Old	CDK1	-0.10441
+AGID00293	1658	ab32384	Set163	CDK1_pT14	-1.10531
+AGID00314	1783	4539	Old	CDK1_pY15	-0.72531
+AGID00423	2397	8064	Set163	CDT1	0.7425046
+AGID02101	2348	15102	Set163	cGAS	-0.28346
+AGID00447	2410	13460	Set163	CHD1L	-0.5047318
+AGID00189	1203	2360	Old	CHK1	0.16894
+AGID00234	1348	ab79758	Old	CHK1_pS296	0.1031
+AGID00107	903	2348	Old	CHK1_pS345	0.018066
+AGID00018	146	3440	Old	CHK2	-0.31808
+AGID00019	147	2197	Old	CHK2_pT68	-0.20553
+AGID00527	2078	4952	Old	CIAP	-0.13128
+AGID00350	2018	3793	Set163	CIITA	0.24264
+AGID00434	155	9164	Old	CJUN_pS73	-0.0018988
+AGID00020	157	1522-1/ab32363	Old	CKIT	0.92238
+AGID00400	852	NB100-91714	Old	CLAUDIN7	-0.029144
+AGID00466	726	3127	Old	CMET	0.17806
+AGID00079	727	3129	Old	CMET_pY1235	-0.030566
+AGID00167	161	9402	Old	CMYC	-0.11471
+AGID00292	1656	11130-1-AP	Old	COG3	-0.076094
+AGID00021	171	sc-20649	Old	COLLAGENVI	1.4482
+AGID00141	1069	459230	Old	COMPLEXIISUBUNIT30	NA
+AGID00267	1568	3512	Set163	Connexin-43	-0.9592003
+AGID00269	1571	6434	Set163	Coup-TFII	0.44389
+AGID00150	1116	4850	Set163	Cox-IV	-0.1038507
+AGID00195	1218	4842	Set163	Cox2	0.17959
+AGID00188	803	05-739	Old	CRAF	-0.08694
+AGID00022	179	9427	Old	CRAF_pS338	-0.095661
+AGID00023	181	9197	Set163	Creb	0.8610089
+AGID00393	2334	9198	Set163	CREB_pS133	-0.1399579
+AGID00365	2155	4980	Set163	CSK	0.50193
+AGID00367	2160	9201	Set163	CtIP	0.5690347
+AGID00536	2096	ab107198	Old	CTLA4	NA
+AGID00025	198	2936	Set163	Cyclin-D3	-0.3171601
+AGID00024	192	1495-1/ab32053	Old	CYCLINB1	-1.4884
+AGID00382	194	sc-718	Old	CYCLIND1	0.17757
+AGID00437	199	sc-25303	Old	CYCLINE1	-1.0432
+AGID00449	202	1142-1	Old	CYCLINE2	-0.3312
+AGID00209	1257	ab110324	Set163	Cyclophilin-F	-0.2926903
+AGID00247	1379	ab48389	Set163	D-a-Tubulin	-0.345875
+AGID00308	1770	GTX10524	Set163	DAPK1_pS308	-0.5432601
+AGID00304	1744	ab51601	Set163	DAPK2	-0.1314652
+AGID00343	1980	6998	Set163	DDB-1	-0.1058901
+AGID00427	2402	5583	Set163	DDR1	0.02615423
+AGID00428	2403	SAB4504671	Set163	DDR1_pY513	-0.61119
+AGID00532	1273	Bast Lab	Old	DIRAS3	0.35638
+AGID00104	891	ab76008	Old	DJ1	0.67717
+AGID02146	2452	4658	Set163	DM-Histone-H3	0.6625946
+AGID00386	1397	ab32521	Set163	DM-K9-Histone-H3	-0.173495
+AGID00352	2030	14649	Set163	DNA-Ligase-IV	0.2404047
+AGID00407	2371	13609	Set163	DNA_POLG	0.2469199
+AGID00399	2344	5032	Set163	DNMT1	-0.08852013
+AGID00409	2373	5391	Set163	DRP1	0.05913843
+AGID00253	1406	5149	Old	DUSP4	0.90659
+AGID00334	1936	ab76310	Set163	DUSP6	0.3432397
+AGID00116	940	3218	Old	DVL3	-0.75751
+AGID00211	1261	sc-251	Old	E2F1	NA
+AGID00148	1099	3195	Old	ECADHERIN	-0.61945
+AGID00135	1060	2332	Old	EEF2	-0.28256
+AGID00136	1061	3692	Old	EEF2K	0.78675
+AGID00152	1120	2232	Old	EGFR	-0.045049
+AGID00450	217	2234	Old	EGFR_pY1068	0.34572
+AGID00026	221	1124-1/ab32578	Old	EGFR_pY1173	0.31583
+AGID00078	722	9742	Old	EIF4E	-0.01312
+AGID00328	1871	ab76256	Set163	eIF4E_pS209	0.4698897
+AGID00154	1124	2498	Old	EIF4G	-0.64513
+AGID00027	228	9181	Set163	Elk1_pS383	0.552445
+AGID00235	1350	M061329-2	Set163	EMA	1.74476
+AGID00394	2337	3810	Set163	Enolase-1	0.2582748
+AGID00395	2338	8171	Set163	Enolase-2	0.313065
+AGID00196	1219	GTX629542	Old	ENY2	-0.4251
+AGID00438	1849	A302-024A	Set163	EphA2	0.31739
+AGID00552	2422	6347	Set163	EphA2_pS897	-0.5807
+AGID00553	2423	12677	Set163	EphA2_pY588	-0.3102685
+AGID00075	693	556347	Old	EPPK1	-0.27245
+AGID00335	238	RM-9101	Old	ERALPHA	1.9542
+AGID00029	241	1091-1/ab32396	Old	ERALPHA_pS118	-0.26463
+AGID00240	247	MS-671	Old	ERCC1	-0.091521
+AGID00239	1355	11331-1-AP	Old	ERCC5	-0.032057
+AGID00484	249	sc-154	Old	ERK2	-0.010874
+AGID00372	2193	3552	Set163	Erk5	0.61972
+AGID00405	2369	13826	Set163	ERRalpha	0.2885049
+AGID00187	1200	A303-501A	Old	ETS1	0.48997
+AGID00511	2492	2593	Set163	EVI1	0.5753244
+AGID00485	1284	4905	Old	EZH2	NA
+AGID00030	252	1700-1/ab40794	Set163	FAK	0.9075
+AGID02151	2457	8556	Set163	FAK_pY397	-0.4110766
+AGID00171	1156	3180	Old	FASN	0.59112
+AGID00356	2085	500-P18/10775-082	Set163	FGF-basic	1.098505
+AGID00031	262	1574-1/ab45688	Old	FIBRONECTIN	0.58789
+AGID00339	1959	4403	Set163	FN14	-0.442905
+AGID02152	2458	20459	Old	FOXM1	-0.53894
+AGID00378	269	9467	Old	FOXO3A	0.13765
+AGID02197	2515	orb6051	Old	FOXO3A_pS318S321	0.12563
+AGID02167	2475	PA5-64616	Set163	FRS2-alpha_pY196	0.01815001
+AGID02213	2575	ab124892	Set163	FTO	-0.4389
+AGID02141	2446	12263	Old	G6PD	0.075238
+AGID00117	943	3239	Old	GAB2	-0.07257
+AGID00412	274	AM4300	Old	GAPDH	-1.9667
+AGID00086	764	558686	Old	GATA3	1.6456
+AGID00383	1578	4253	Old	GATA6	0.41675
+AGID00289	1634	12601-1-AP	Set163	GCLC	-0.291275
+AGID00305	1745	ab124827	Set163	GCLM	-0.14613
+AGID00212	1263	3305	Old	GCN5L2	-0.49164
+AGID00270	1579	3538	Set163	Gli1	-1.25054
+AGID00263	1520	ab69838	Set163	Gli3	-0.3471111
+AGID00548	2530	3660	Set163	Glucocorticoid-Receptor	1.095505
+AGID00387	1617	12793	Set163	Glutamate-D1-2	0.2944889
+AGID00262	1491	ab156876	Set163	Glutaminase	-0.2126501
+AGID00319	1807	4275	Set163	Granzyme-B	0.6915849
+AGID00368	2169	ab183737	Set163	GRB7	-0.7834208
+AGID00396	2339	3593	Set163	Grp75	0.09493494
+AGID00174	1163	9315	Set163	GSK-3B	-0.07192087
+AGID00502	1082	9336	Old	GSK3_pS9	-0.43834
+AGID00033	284	sc-7291	Old	GSK3ALPHABETA	-0.13722
+AGID00034	285	9331	Old	GSK3ALPHABETA_pS21S9	-0.25027
+AGID00129	1035	3886	Old	GYS	NA
+AGID00130	1036	3891	Old	GYS_pS641	NA
+AGID01354	1342	9718	Set163	H2AX_pS139	-0.19932
+AGID00363	1409	MA1-2022	Set163	H2AX_pS140	-0.4086651
+AGID00131	1038	MS-325-P1	Old	HER2	-0.14307
+AGID00142	299	06-229	Old	HER2_pY1248	0.13876
+AGID00110	911	sc-285	Old	HER3	0.092189
+AGID00080	728	4791	Old	HER3_pY1289	0.15151
+AGID00103	890	2573	Old	HEREGULIN	0.0029568
+AGID00271	1582	11988	Set163	HES1	0.4454098
+AGID00397	2340	2024	Set163	Hexokinase-I	0.09560976
+AGID00442	1023	2867	Set163	Hexokinase-II	-0.6023016
+AGID00419	1402	610958	Old	HIF1ALPHA	NA
+AGID00205	1250	ab1791	Set163	Histone-H3	1.77649
+AGID00398	2341	3377	Set163	Histone-H3_pS10	0.6212649
+AGID00332	1901	ab128959	Set163	HLA-DQA1	1.196619
+AGID00333	1902	14832-1-AP	Set163	HMHA1	1.14246
+AGID00035	321	2402	Set163	HSP27	-0.3175651
+AGID00036	323	2401	Set163	HSP27_pS82	-0.42237
+AGID00320	1808	12165	Set163	HSP60	0.1457848
+AGID00037	325	4872	Old	HSP70	0.2011
+AGID00366	2158	86630	Set163	IDO	1.011035
+AGID00197	1221	3024	Old	IGF1R_pY1135Y1136	0.32578
+AGID00038	335	3922	Old	IGFBP2	-0.55753
+AGID00090	793	611504	Set163	IGFBP3	-0.6250703
+AGID00039	336	3027	Set163	IGFRb	0.13385
+AGID00336	1949	12153	Set163	IL-6	0.4435647
+AGID02221	2583	57145	Set163	IMP3	-0.3006701
+AGID02153	2459	14543	Old	INPP4B	0.83872
+AGID00272	1586	3025	Set163	IR-b	-0.14635
+AGID00519	2519	4302	Set163	IRF-3	-0.3360747
+AGID00520	2520	4947	Set163	IRF-3_pS396	-0.5069805
+AGID00223	1316	sc-497	Old	IRF1	-0.013669
+AGID00092	802	06-248	Old	IRS1	0.23556
+AGID00040	371	4502	Set163	IRS2	0.1888095
+AGID00250	1394	sc-13157	Old	JAB1	0.36893
+AGID00256	1413	ab109536	Set163	Jagged1	-0.06897447
+AGID00177	1166	3230	Old	JAK2	0.015064
+AGID00758	377	4671	Old	JNK_pT183Y185	0.13365
+AGID02136	2439	PA5-28262	Old	JNK2	0.95011
+AGID00307	1757	ab10484	Set163	KAP1	-0.4255555
+AGID00528	904	2180	Old	KU80	-0.17314
+AGID00375	2237	HPA028732	Set163	LAD1	-0.01574499
+AGID00290	1643	IHC-00439	Set163	Lasu1	-0.840195
+AGID00279	1618	4108	Set163	LC3A-B	0.2857547
+AGID00042	397	2752	Old	LCK	0.44788
+AGID00119	976	3582	Old	LDHA	NA
+AGID00533	977	ab85319	Old	LDHB	NA
+AGID00529	1477	3050	Old	LKB1	0.11207
+AGID00244	1367	2568	Set163	LRP6_pS1490	-0.677865
+AGID00439	2424	2796	Set163	Lyn	0.5592649
+AGID02154	2460	4370	Old	MAPK_pT202Y204	1.4386
+AGID00198	1222	5453	Set163	Mcl-1	0.05825896
+AGID00288	1633	AB3314P	Set163	MCT4	-0.4861901
+AGID00175	1164	3521	Set163	MDM2_pS166	-0.07252499
+AGID00044	417	1235-1/ab32576	Old	MEK1	0.64876
+AGID00143	1076	9154	Old	MEK1_pS217S221	0.50734
+AGID00201	1243	9125	Set163	MEK2	-0.1763205
+AGID00361	2118	ab51061	Set163	MelanA	-0.283825
+AGID00362	2119	ab137078	Set163	Melanoma-gp100	0.6117299
+AGID00337	1951	12711	Set163	MERIT40	-0.006635629
+AGID00338	1952	12110	Set163	MERIT40_pS29	-0.1784
+AGID02212	2574	ab195352	Set163	METTL3	-0.51977
+AGID00225	1323	sc-20121	Set163	MIF	0.57699
+AGID00137	1062	WH0054206M1	Old	MIG6	-0.066329
+AGID00403	2117	ab20663	Set163	MITF	0.5031746
+AGID00503	1067	ab3298	Old	MITOCHONDRIA	NA
+AGID00321	1809	14739	Set163	Mitofusin-1	0.2146412
+AGID00322	1810	11925	Set163	Mitofusin-2	0.2594199
+AGID00389	2324	3515	Set163	MLH1	-0.4228501
+AGID00312	1780	14993	Set163	MLKL	-0.4480801
+AGID00402	2359	MAB3328	Set163	MMP14	-0.3479501
+AGID00045	435	4022	Set163	MMP2	0.6456871
+AGID00122	1005	2195	Set163	Mnk1	-0.1858912
+AGID00331	1899	sc-377312	Set163	MR1	-0.09141518
+AGID00273	1589	ab103319	Set163	MRAP	-0.23564
+AGID00530	440	4847	Old	MRE11	0.22517
+AGID00390	905	2850	Old	MSH2	-0.16084
+AGID00138	1063	22030002	Old	MSH6	-0.8054
+AGID00299	1675	ab76148	Set163	MSI2	-0.07409499
+AGID00232	1344	ab14705	Set163	MTCO1	-0.3441117
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+AGID00047	446	2971	Old	MTOR_pS2448	0.020591
+AGID00204	1247	H00009788-M01A	Set163	MTSS1	-0.4015052
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+AGID00291	1647	3403	Old	MYOSINIIA	-0.017725
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+AGID00216	1274	5795-1/ab129189	Old	NAPSINA	NA
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+AGID00258	1420	3187	Set163	NQO1	-0.9065252
+AGID00162	1136	sc-31	Old	NRAS	0.26341
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+AGID00297	1669	2750	Set163	Oct-4	0.008434998
+AGID00420	466	1712-1/ab40803	Old	P16INK4A	0.2304
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+AGID00105	897	1591-1/ab32034	Old	P27	0.22047
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+AGID00099	878	ab64949	Old	P27_pT198	-0.14713
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+AGID00098	479	9211	Old	P38_pT180Y182	0.21708
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+AGID00490	1187	610833	Old	P62LCKLIGAND	-0.35295
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+<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">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">C5960B6E-DF0D-4BAE-8284-7929FAA07A1F</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">120.77.0</admin:batch_number>
+        <admin:project_code xsd_ver="">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">1</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">7</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+    </admin:admin>
+    <bio:patient>
+        <admin:additional_studies/>
+        <shared:bcr_patient_barcode cde="2673794" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">001cef41-ff86-4d3f-a140-a647ac4b10a1</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E2</shared:tissue_source_site>
+        <shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A1IU</shared:patient_id>
+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+        <bio:days_to_index precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">0</bio:days_to_index>
+        <bio:bcr_canonical_check>
+            <bio:bcr_patient_canonical_status cde="" xsd_ver="2.6" procurement_status="Completed" owner="">Canonical</bio:bcr_patient_canonical_status>
+        </bio:bcr_canonical_check>
+        <bio:samples>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:sample_type_id>
+                <bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
+                <bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Primary Tumor</bio:sample_type>
+                <bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">270</bio:initial_weight>
+                <bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
+                <bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">136</bio:days_to_collection>
+                <bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">92058c44-a484-4e08-b1fe-dfe2f03a0aa1</bio:bcr_sample_uuid>
+                <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                <bio:portions>
+                    <bio:shipment_portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">21</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</bio:portion_sequence>
+                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A17J</bio:plate_id>
+                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">20</bio:center_id>
+                        <bio:shipment_portion_day_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">8</bio:shipment_portion_month_of_shipment>
+                        <bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2011</bio:shipment_portion_year_of_shipment>
+                        <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>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">19429156-19AD-44F5-A671-1FEF7A6E693C</bio:bcr_shipment_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                    </bio:shipment_portion>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">18</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6fca18b6-bb62-4617-9d4c-43deb596ce77</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.80</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c10256c7-2501-4a6b-9ecd-d268e78a42c5</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14E</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14E-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">aa6390ba-ac10-480e-888e-da7005c9af1b</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476592</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14F</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14F-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">34a6f1be-b1db-4659-b620-6e21e0f73b2b</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099028023</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14G</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14G-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7fcd5fda-8155-4b48-afb9-9e7958627113</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476496</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14H</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11D-A14H-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">180ccad3-0279-4dea-a595-f154f85abea2</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099039639</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.79</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fabbaa0c-e741-4f04-b971-062a1f8dfe70</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14C</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R-A14C-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ecfbd0ba-1833-44a6-bda3-8d441212e10d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099029944</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14D</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11R-A14D-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">53c8bbbd-16cd-4790-a99b-f45b0f958157</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.01</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099029933</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">mirVana (Allprep DNA) RNA</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:rna>
+                                    <bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.90</bio:ratio_28s_18s>
+                                    <bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8.90</bio:rinvalue>
+                                </bio:rna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7AAAE8C2-854B-4909-89CF-1D9299E06094</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16H</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-11W-A16H-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a030f906-bc29-4230-af43-9aef58a3f539</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113420304</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">60</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">60</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-01A-01-TSA</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ba60c639-0f0b-4ccf-8990-d561c67794a8</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                        </bio:slides>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">ACE20EC5-2822-4F50-949E-E194C59F0FCD</bio:pathology_report_uuid>
+                <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>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                    <bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E2F24814-24BA-4158-8841-F27A8E100589</bio:ffpe_slide_uuid>
+                </bio:diagnostic_slides>
+            </bio:sample>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:sample_type_id>
+                <bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
+                <bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Solid Tissue Normal</bio:sample_type>
+                <bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">340</bio:initial_weight>
+                <bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
+                <bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">136</bio:days_to_collection>
+                <bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c8e39abb-9027-4636-84b9-7bc03a8d4e49</bio:bcr_sample_uuid>
+                <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                <bio:portions>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">61</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">210.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">533c254b-0d13-45fb-b9b8-07b4324a45c6</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.11</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b60646e4-b524-4ad7-8cc5-359d598e40db</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14E</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14E-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">29649014-93dc-43a1-921b-7fef21993d35</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.95</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476598</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14F</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14F-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4b2073cb-62fe-41f3-baa1-200fc865871b</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099028029</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14G</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">19</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61D-A14G-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">48e5f4e0-7f51-47f6-a508-347ed3638a6d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476502</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">EEC40DEE-2D51-4990-809E-12F9EDC472C6</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16H</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-61W-A16H-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3cfebe2f-269d-4b0b-926a-32e417edee64</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113419347</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">90</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">40</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">40</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-01-TSA</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1c0aabbc-d315-4571-ada6-4d23b691441e</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">15</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">5</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-02-TSB</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b1e1d4f0-7a97-4a67-a15f-667ba0454e31</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-03-TSC</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1e0a5cc1-d90d-4b19-9f96-93f67139fdb7</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">80</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">50</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-04-TSD</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">e6f3112e-ffbb-40c6-be29-5cb1a4a20d94</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">100</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-05-TSE</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3bc5b9f2-5fd3-4a00-a8f6-9cf98ab35113</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">100</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-E2-A1IU-11A-06-TSF</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">96609ca3-27d5-47b7-a3b2-9f658b24a26b</shared:bcr_slide_uuid>
+                                <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>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                        </bio:slides>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                </bio:diagnostic_slides>
+            </bio:sample>
+        </bio:samples>
+    </bio:patient>
+</bio:tcga_bcr>

data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/94d16d67-a127-4173-af48-204144c8b336_noid_Grn.idat

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data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_A04_777990.grch38.seg.v2.txt

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data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_A04_777990.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,249 @@
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data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_F10_778066.grch38.seg.v2.txt

@@ -0,0 +1,623 @@
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data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_F10_778066.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,72 @@
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+2163923d-41d0-4e87-b1a5-ebdec02678fc	X	129302673	136828174	3184	0.0088
+2163923d-41d0-4e87-b1a5-ebdec02678fc	X	136834849	136838205	3	-1.1824
+2163923d-41d0-4e87-b1a5-ebdec02678fc	X	136840125	155677414	8486	0.012

data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/TCGA-BRCA.bb949708-34dc-48db-94db-c438ce611f57.ascat3.allelic_specific.seg.txt

@@ -0,0 +1,93 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+bb949708-34dc-48db-94db-c438ce611f57	chr1	61735	35606906	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr1	35612842	119801421	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr1	119801482	121741181	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chr1	143285278	227483323	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr1	227485526	228991831	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chr1	228992253	237691942	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr1	237692323	237894689	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr1	237898063	248930189	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	12784	61434305	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	61434354	68165962	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	68171787	110788809	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	110790058	112719065	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	112719327	113067008	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	113067508	126302801	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	126306253	129321922	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	129325147	129498699	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr2	129500613	140890043	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	140898864	141307419	0	0	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	141308625	198598038	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	198603545	198808534	0	0	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	198809927	220880744	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	220880851	221364666	0	0	0
+bb949708-34dc-48db-94db-c438ce611f57	chr2	221364914	242147305	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr3	18667	90230647	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr3	90233924	120940800	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr3	120948623	145994615	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr3	145999950	146569857	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr3	146570453	153600382	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr3	153600402	190116850	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr3	190122562	190301762	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr3	190301771	198169247	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr4	12281	189714971	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr4	189716141	190106768	0	0	0
+bb949708-34dc-48db-94db-c438ce611f57	chr5	15532	39463095	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr5	39465808	43901588	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr5	43902213	50777614	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chr5	50779128	181363319	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr6	149661	25345399	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr6	25345616	80020651	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr6	80021131	81279751	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chr6	81282170	170741917	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr7	43259	55955288	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr7	55956594	64761563	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr7	64761803	92422587	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr7	92422799	146525773	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr7	146529206	158173731	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr7	158174815	159334314	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr8	81254	37668373	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr8	37669524	128307467	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr8	128308924	129210435	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chr8	129210505	145072769	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr9	46587	24985177	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr9	24985662	42995504	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr9	60840363	138200944	1	1	0
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+bb949708-34dc-48db-94db-c438ce611f57	chr10	42401700	133769379	2	1	1
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+bb949708-34dc-48db-94db-c438ce611f57	chr11	48270330	55379174	1	1	0
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+bb949708-34dc-48db-94db-c438ce611f57	chr12	51460	34163361	5	4	1
+bb949708-34dc-48db-94db-c438ce611f57	chr12	34164909	39641364	3	2	1
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+bb949708-34dc-48db-94db-c438ce611f57	chr12	39973255	44224417	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr12	44224673	45697684	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr12	45697735	62557914	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr12	62561970	109658943	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr12	109663825	112802895	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr12	112810302	133201603	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chr13	18452809	114342922	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr14	18225647	106877229	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr15	19811075	101928837	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr16	10777	90221127	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr17	150733	83090856	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr18	48133	80257174	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr19	90910	3851413	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr19	3851673	19698338	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr19	19701028	27844816	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr19	27845337	58586487	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr20	80664	64324800	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr21	10336543	13850551	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chr21	13883107	46677045	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chr22	15294545	50796027	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chrX	251810	35786566	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chrX	35786970	37837968	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chrX	37838892	71453618	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chrX	71454774	76943408	1	1	0
+bb949708-34dc-48db-94db-c438ce611f57	chrX	76945138	80871292	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chrX	80874221	83488121	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chrX	83488291	143135640	2	1	1
+bb949708-34dc-48db-94db-c438ce611f57	chrX	143145797	144272097	2	2	0
+bb949708-34dc-48db-94db-c438ce611f57	chrX	144272113	154326434	3	2	1
+bb949708-34dc-48db-94db-c438ce611f57	chrX	154326537	156004181	2	2	0

data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/TCGA-E2-A1II-01A-01-TSA.b8bb5828-b6a3-45e3-bd16-27722e9fa705.svs

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+oid sha256:cef21b4b6d819a41858127b40e483eb126c32bc9292fbde1e59058df08ad9adc
+size 357227223

data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/TCGA-E2-A1II-01A-11D-A896-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt

@@ -0,0 +1,1168 @@
+GDC_Aliquot_ID	Chromosome	Start	End	Num_Probes	Segment_Mean
+TCGA-E2-A1II-01A-11D-A896-36	chr1	17001	919000	144	0.001851
+TCGA-E2-A1II-01A-11D-A896-36	chr1	919001	1458000	522	-0.169018
+TCGA-E2-A1II-01A-11D-A896-36	chr1	1458001	2584000	1074	-0.171052
+TCGA-E2-A1II-01A-11D-A896-36	chr1	2584001	5660000	2940	-0.238703
+TCGA-E2-A1II-01A-11D-A896-36	chr1	5660001	5727000	67	-0.236151
+TCGA-E2-A1II-01A-11D-A896-36	chr1	5727001	5853000	126	-0.236676
+TCGA-E2-A1II-01A-11D-A896-36	chr1	5853001	6295000	440	-0.201087
+TCGA-E2-A1II-01A-11D-A896-36	chr1	6295001	6772000	477	-0.191500
+TCGA-E2-A1II-01A-11D-A896-36	chr1	6772001	10172000	3393	-0.206606
+TCGA-E2-A1II-01A-11D-A896-36	chr1	10172001	13600000	3026	-0.204093
+TCGA-E2-A1II-01A-11D-A896-36	chr1	13600001	14994000	1391	-0.239434
+TCGA-E2-A1II-01A-11D-A896-36	chr1	14994001	15418000	423	-0.226305
+TCGA-E2-A1II-01A-11D-A896-36	chr1	15418001	16541000	1116	-0.198740
+TCGA-E2-A1II-01A-11D-A896-36	chr1	16541001	16714000	103	-0.082335
+TCGA-E2-A1II-01A-11D-A896-36	chr1	16715001	16857000	48	-1.042246
+TCGA-E2-A1II-01A-11D-A896-36	chr1	16860001	16955000	91	-0.011172
+TCGA-E2-A1II-01A-11D-A896-36	chr1	16955001	17658000	701	-0.211638
+TCGA-E2-A1II-01A-11D-A896-36	chr1	17658001	17758000	100	-0.216067
+TCGA-E2-A1II-01A-11D-A896-36	chr1	17758001	17882000	124	-0.242806
+TCGA-E2-A1II-01A-11D-A896-36	chr1	17882001	19249000	1366	-0.228904
+TCGA-E2-A1II-01A-11D-A896-36	chr1	19249001	21385000	2131	-0.211997
+TCGA-E2-A1II-01A-11D-A896-36	chr1	21385001	22161000	759	-0.192513
+TCGA-E2-A1II-01A-11D-A896-36	chr1	22161001	22268000	107	-0.202240
+TCGA-E2-A1II-01A-11D-A896-36	chr1	22268001	22405000	137	-0.219557
+TCGA-E2-A1II-01A-11D-A896-36	chr1	22405001	24319000	1911	-0.208753
+TCGA-E2-A1II-01A-11D-A896-36	chr1	24319001	25044000	719	-0.201175
+TCGA-E2-A1II-01A-11D-A896-36	chr1	25044001	25167000	123	-0.206753
+TCGA-E2-A1II-01A-11D-A896-36	chr1	25167001	28924000	3654	-0.201742
+TCGA-E2-A1II-01A-11D-A896-36	chr1	28924001	31559000	2624	-0.256604
+TCGA-E2-A1II-01A-11D-A896-36	chr1	31559001	33780000	2216	-0.241594
+TCGA-E2-A1II-01A-11D-A896-36	chr1	33780001	34442000	652	-0.283467
+TCGA-E2-A1II-01A-11D-A896-36	chr1	34442001	35139000	691	-0.246783
+TCGA-E2-A1II-01A-11D-A896-36	chr1	35139001	59809000	24525	0.140854
+TCGA-E2-A1II-01A-11D-A896-36	chr1	59809001	59820000	11	-0.186900
+TCGA-E2-A1II-01A-11D-A896-36	chr1	59820001	103561000	43388	0.128490
+TCGA-E2-A1II-01A-11D-A896-36	chr1	103561001	103782000	64	0.503892
+TCGA-E2-A1II-01A-11D-A896-36	chr1	103782001	109167000	5154	0.120216
+TCGA-E2-A1II-01A-11D-A896-36	chr1	109167001	109177000	10	-0.280092
+TCGA-E2-A1II-01A-11D-A896-36	chr1	109177001	143541000	11766	0.133313
+TCGA-E2-A1II-01A-11D-A896-36	chr1	143541001	143938000	234	-0.142555
+TCGA-E2-A1II-01A-11D-A896-36	chr1	144101001	147871000	1651	0.440416
+TCGA-E2-A1II-01A-11D-A896-36	chr1	147871001	152570000	3189	0.465176
+TCGA-E2-A1II-01A-11D-A896-36	chr1	152570001	153271000	655	0.436245
+TCGA-E2-A1II-01A-11D-A896-36	chr1	153271001	155311000	2030	0.466703
+TCGA-E2-A1II-01A-11D-A896-36	chr1	155311001	157220000	1885	0.473858
+TCGA-E2-A1II-01A-11D-A896-36	chr1	157220001	157925000	705	0.433709
+TCGA-E2-A1II-01A-11D-A896-36	chr1	157925001	158839000	912	0.417586
+TCGA-E2-A1II-01A-11D-A896-36	chr1	158839001	159756000	902	0.425060
+TCGA-E2-A1II-01A-11D-A896-36	chr1	159756001	163192000	3342	0.448749
+TCGA-E2-A1II-01A-11D-A896-36	chr1	163192001	164824000	1622	0.403451
+TCGA-E2-A1II-01A-11D-A896-36	chr1	164824001	165838000	1014	0.408133
+TCGA-E2-A1II-01A-11D-A896-36	chr1	165838001	165945000	107	0.268046
+TCGA-E2-A1II-01A-11D-A896-36	chr1	165945001	166699000	744	0.389935
+TCGA-E2-A1II-01A-11D-A896-36	chr1	166699001	167121000	422	0.406011
+TCGA-E2-A1II-01A-11D-A896-36	chr1	167121001	174746000	7556	0.425021
+TCGA-E2-A1II-01A-11D-A896-36	chr1	174746001	175057000	305	0.304784
+TCGA-E2-A1II-01A-11D-A896-36	chr1	175057001	177801000	2728	0.366044
+TCGA-E2-A1II-01A-11D-A896-36	chr1	177801001	179576000	1766	0.414206
+TCGA-E2-A1II-01A-11D-A896-36	chr1	179576001	187379000	7761	0.414886
+TCGA-E2-A1II-01A-11D-A896-36	chr1	187379001	192125000	4718	0.379815
+TCGA-E2-A1II-01A-11D-A896-36	chr1	192125001	195163000	3017	0.397011
+TCGA-E2-A1II-01A-11D-A896-36	chr1	195163001	196180000	1013	0.379904
+TCGA-E2-A1II-01A-11D-A896-36	chr1	196180001	197429000	1156	0.394201
+TCGA-E2-A1II-01A-11D-A896-36	chr1	197429001	202105000	4651	0.418778
+TCGA-E2-A1II-01A-11D-A896-36	chr1	202105001	206022000	3912	0.434362
+TCGA-E2-A1II-01A-11D-A896-36	chr1	206022001	206502000	252	0.444892
+TCGA-E2-A1II-01A-11D-A896-36	chr1	206502001	209029000	2475	0.413460
+TCGA-E2-A1II-01A-11D-A896-36	chr1	209029001	211186000	2140	0.397185
+TCGA-E2-A1II-01A-11D-A896-36	chr1	211186001	213483000	2288	0.420502
+TCGA-E2-A1II-01A-11D-A896-36	chr1	213483001	213507000	24	0.104412
+TCGA-E2-A1II-01A-11D-A896-36	chr1	213507001	213622000	115	0.283227
+TCGA-E2-A1II-01A-11D-A896-36	chr1	213622001	217177000	3546	0.383676
+TCGA-E2-A1II-01A-11D-A896-36	chr1	217177001	217407000	229	0.379241
+TCGA-E2-A1II-01A-11D-A896-36	chr1	217407001	217643000	236	0.371192
+TCGA-E2-A1II-01A-11D-A896-36	chr1	217643001	219492000	1832	0.396236
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+TCGA-E2-A1II-01A-11D-A896-36	chr1	220967001	222387000	1412	0.386362
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+TCGA-E2-A1II-01A-11D-A896-36	chr1	227425001	227488000	63	0.267013
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+TCGA-E2-A1II-01A-11D-A896-36	chr1	230238001	230331000	93	-0.294287
+TCGA-E2-A1II-01A-11D-A896-36	chr1	230331001	231148000	815	0.421546
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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_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">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">F33AB49E-492B-43F8-B346-4AD61DC1C01C</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">117.79.0</admin:batch_number>
+        <admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+        <admin:patient_withdrawal>
+            <admin:withdrawn>false</admin:withdrawn>
+        </admin:patient_withdrawal>
+        <admin:program xsi:nil="true" xsd_ver="2.7"/>
+        <admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
+    </admin:admin>
+    <brca:patient>
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+        <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="932537">Breast</clin_shared:tumor_tissue_site>
+        <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" xsi:nil="true"/>
+        <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="932527">No</shared:other_dx>
+        <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="932523">FEMALE</shared:gender>
+        <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="932529">Alive</clin_shared:vital_status>
+        <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">-18788</clin_shared:days_to_birth>
+        <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=""/>
+        <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"/>
+        <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">850</clin_shared:days_to_last_followup>
+        <clin_shared:race_list>
+            <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="932525">WHITE</clin_shared:race>
+        </clin_shared:race_list>
+        <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-E2-A1II</shared:bcr_patient_barcode>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">E2</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A1II</shared:patient_id>
+        <shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">0fe1419e-a005-407c-8ae7-15c4c1579539</shared:bcr_patient_uuid>
+        <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="932528">No</shared:history_of_neoadjuvant_treatment>
+        <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>
+        <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>
+        <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>
+        <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>
+        <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>
+        <clin_shared:age_at_initial_pathologic_diagnosis precision="day" xsd_ver="1.12" tier="1" cde="2006657" owner="TSS" procurement_status="Completed">51</clin_shared:age_at_initial_pathologic_diagnosis>
+        <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="932543">2008</clin_shared:year_of_initial_pathologic_diagnosis>
+        <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="932526">NOT HISPANIC OR LATINO</clin_shared:ethnicity>
+        <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="932536">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+        <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="Completed" restricted="false" source_system_identifier="932555">YES</clin_shared:primary_lymph_node_presentation_assessment>
+        <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="932556">5</clin_shared:lymph_node_examined_count>
+        <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="Completed" restricted="false" source_system_identifier="932571">allred score 0 + 0 = 0</brca_shared:er_detection_method_text>
+        <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="Completed" restricted="false" source_system_identifier="932577">allred score 2+2 = 4</brca_shared:pgr_detection_method_text>
+        <brca:anatomic_neoplasm_subdivisions>
+            <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="932538">Left</clin_shared:anatomic_neoplasm_subdivision>
+        </brca:anatomic_neoplasm_subdivisions>
+        <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="932587"/>
+        <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="932552">Sentinel node biopsy alone</brca:axillary_lymph_node_stage_method_type>
+        <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="932553"/>
+        <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="932546">Lumpectomy</brca:breast_carcinoma_surgical_procedure_name>
+        <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="932550" xsi:nil="true"/>
+        <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="932549"/>
+        <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="932547"/>
+        <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="932539">Infiltrating Ductal Carcinoma</shared:histological_type>
+        <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="932540" xsi:nil="true"/>
+        <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="932524">Post (prior bilateral ovariectomy OR >12 mo since LMP with no prior hysterectomy)</clin_shared:menopause_status>
+        <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="932572">Positive</brca_shared:breast_carcinoma_progesterone_receptor_status>
+        <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="932554">NO</brca:cytokeratin_immunohistochemistry_staining_method_micrometastasis_indicator>
+        <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" source_system_identifier="932568"/>
+        <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="932569"/>
+        <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="932580">1+</brca_shared:her2_immunohistochemistry_level_result>
+        <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="932551"/>
+        <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="932548">Negative</clin_shared:margin_status>
+        <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="932544">Tumor resection</clin_shared:initial_pathologic_diagnosis_method>
+        <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="932545" xsi:nil="true"/>
+        <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 Evaluated" restricted="false" source_system_identifier="932583"/>
+        <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="932566">Negative</brca_shared:breast_carcinoma_estrogen_receptor_status>
+        <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="932578">Negative</brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status>
+        <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="Not Available" restricted="false" source_system_identifier="932558"/>
+        <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="932557">0</clin_shared:number_of_lymphnodes_positive_by_he>
+        <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="Completed" restricted="false" source_system_identifier="932576">allred score = 4</brca_shared:pos_finding_progesterone_receptor_other_measurement_scale_text>
+        <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="Completed" restricted="false" source_system_identifier="932570">allred score = 0</brca_shared:positive_finding_estrogen_receptor_other_measurement_scale_text>
+        <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="932579">&lt;10%</brca_shared:her2_erbb_pos_finding_cell_percent_category>
+        <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="932581"/>
+        <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="932582"/>
+        <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="932586"/>
+        <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="932588"/>
+        <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="932589"/>
+        <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="932518">NO</clin_shared:tissue_prospective_collection_indicator>
+        <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="932519">YES</clin_shared:tissue_retrospective_collection_indicator>
+        <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="932585"/>
+        <brca:first_nonlymph_node_metastasis_anatomic_sites>
+            <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="932564"/>
+            <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="932565"/>
+        </brca:first_nonlymph_node_metastasis_anatomic_sites>
+        <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="932567"/>
+        <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="932573"/>
+        <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="Completed" restricted="false" source_system_identifier="932590">NO</brca:distant_metastasis_present_ind2>
+        <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="932591"/>
+        <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="932592"/>
+        <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="932594"/>
+        <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="932595"/>
+        <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="932596"/>
+        <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="932597"/>
+        <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="932603"/>
+        <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="932598"/>
+        <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="932600"/>
+        <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="932601"/>
+        <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="932602"/>
+        <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="932604"/>
+        <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="932605"/>
+        <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="932606"/>
+        <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="932607"/>
+        <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="932608"/>
+        <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="932610"/>
+        <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="932611"/>
+        <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="932612"/>
+        <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="932613"/>
+        <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="932614"/>
+        <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="932609"/>
+        <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="932584"/>
+        <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" source_system_identifier="932574"/>
+        <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="932575"/>
+        <shared_stage:stage_event system="AJCC">
+            <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="Completed" restricted="false" source_system_identifier="932559">6th</shared_stage:system_version>
+            <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"/>
+            <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="932563">Stage I</shared_stage:pathologic_stage>
+            <shared_stage:tnm_categories>
+                <shared_stage:clinical_categories>
+                    <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"/>
+                    <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"/>
+                    <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"/>
+                </shared_stage:clinical_categories>
+                <shared_stage:pathologic_categories>
+                    <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="932560">T1c</shared_stage:pathologic_T>
+                    <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="932561">N0</shared_stage:pathologic_N>
+                    <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="932562">M0</shared_stage:pathologic_M>
+                </shared_stage:pathologic_categories>
+            </shared_stage:tnm_categories>
+            <shared_stage:psa>
+                <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"/>
+                <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"/>
+            </shared_stage:psa>
+            <shared_stage:gleason_grading>
+                <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"/>
+                <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"/>
+                <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"/>
+                <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"/>
+            </shared_stage:gleason_grading>
+            <shared_stage:ann_arbor>
+                <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"/>
+                <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"/>
+            </shared_stage:ann_arbor>
+            <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"/>
+            <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"/>
+            <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"/>
+        </shared_stage:stage_event>
+        <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"/>
+        <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"/>
+        <brca_nte:new_tumor_events>
+            <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"/>
+        </brca_nte:new_tumor_events>
+        <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="932516">28</clin_shared:day_of_form_completion>
+        <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="932515">4</clin_shared:month_of_form_completion>
+        <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="932517">2011</clin_shared:year_of_form_completion>
+        <brca:follow_ups>
+            <follow_up_v2.1:follow_up version="2.1" sequence="1">
+                <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-E2-A1II-F19954</clin_shared:bcr_followup_barcode>
+                <clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">27975FD4-6AE6-4CF8-B70D-97A5D77F33F1</clin_shared:bcr_followup_uuid>
+                <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="1488089">Scheduled Follow-up Submission</clin_shared:followup_case_report_form_submission_reason>
+                <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="1488090">YES</clin_shared:radiation_therapy>
+                <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="1488091">YES</clin_shared:postoperative_rx_tx>
+                <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="1488092">Alive</clin_shared:vital_status>
+                <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">1025</clin_shared:days_to_last_followup>
+                <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"/>
+                <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="1488099">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+                <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="1488100">NO</nte:new_tumor_event_after_initial_treatment>
+                <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"/>
+                <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="1488104"/>
+                <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="1488105"/>
+                <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="1488106"/>
+                <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="1488107"/>
+                <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"/>
+                <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="1488111"/>
+                <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="1488112"/>
+                <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="1488113"/>
+                <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="1488114"/>
+                <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="1488115"/>
+                <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="1488116"/>
+                <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="1488117"/>
+                <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="1488118"/>
+                <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="1488119"/>
+                <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="1488120"/>
+                <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="1488121"/>
+                <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="1488122"/>
+                <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="1488123"/>
+                <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="1488124"/>
+                <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="1488125"/>
+                <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="1488126"/>
+                <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="1488127"/>
+                <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="1488128"/>
+                <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="1488129"/>
+                <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="1488130"/>
+                <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="1488131"/>
+                <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="1488132"/>
+                <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="1488133"/>
+                <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="1488134"/>
+                <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="1488135"/>
+                <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="1488136"/>
+                <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="1488087">21</clin_shared:day_of_form_completion>
+                <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="1488086">12</clin_shared:month_of_form_completion>
+                <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="1488088">2011</clin_shared:year_of_form_completion>
+            </follow_up_v2.1:follow_up>
+        </brca:follow_ups>
+        <rx:drugs>
+            <rx:drug>
+                <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"/>
+                <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="1488232">2</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-E2-A1II-D19957</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">E52E0CD6-6BA3-4B19-B9A1-B64D2D70C333</rx:bcr_drug_uuid>
+                <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="1488241">1312</rx:total_dose>
+                <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="1488242">mg</rx:total_dose_units>
+                <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="1488239">328</rx:prescribed_dose>
+                <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="1488240">mg</rx:prescribed_dose_units>
+                <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="1488238">4</rx:number_cycles>
+                <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">129</rx:days_to_drug_therapy_start>
+                <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">171</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <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="1488235">Chemotherapy</rx:therapy_type>
+                    <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="1488236"/>
+                </rx:therapy_types>
+                <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="1488237">Paclitaxel</rx:drug_name>
+                <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"/>
+                <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="1488233">ADJUVANT</clin_shared:regimen_indication>
+                <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="1488234"/>
+                <rx:route_of_administrations>
+                    <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="1488243">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <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="1488247">NO</rx:therapy_ongoing>
+                <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"/>
+                <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="1488223">21</clin_shared:day_of_form_completion>
+                <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="1488222">12</clin_shared:month_of_form_completion>
+                <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="1488224">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+            <rx:drug>
+                <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"/>
+                <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="1488142">1</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-E2-A1II-D19955</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">32F5916B-52FE-4FD3-8F7D-FAFD84F63E02</rx:bcr_drug_uuid>
+                <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="1488151">460</rx:total_dose>
+                <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="1488152">mg</rx:total_dose_units>
+                <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="1488149">116</rx:prescribed_dose>
+                <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="1488150">mg</rx:prescribed_dose_units>
+                <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="1488148">4</rx:number_cycles>
+                <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">73</rx:days_to_drug_therapy_start>
+                <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">115</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <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="1488145">Chemotherapy</rx:therapy_type>
+                    <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="1488146"/>
+                </rx:therapy_types>
+                <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="1488147">Doxorubicin</rx:drug_name>
+                <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"/>
+                <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="1488143">ADJUVANT</clin_shared:regimen_indication>
+                <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="1488144"/>
+                <rx:route_of_administrations>
+                    <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="1488153">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <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="1488157">NO</rx:therapy_ongoing>
+                <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"/>
+                <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="1488140">21</clin_shared:day_of_form_completion>
+                <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="1488139">12</clin_shared:month_of_form_completion>
+                <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="1488141">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+            <rx:drug>
+                <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"/>
+                <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="1488166">1</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-E2-A1II-D19956</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">7F620EE0-F7E5-41C9-9E7F-E47843DBB6EC</rx:bcr_drug_uuid>
+                <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="1488175">4656</rx:total_dose>
+                <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="1488176">mg</rx:total_dose_units>
+                <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="1488173">1164</rx:prescribed_dose>
+                <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="1488174">mg</rx:prescribed_dose_units>
+                <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="1488172">4</rx:number_cycles>
+                <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">73</rx:days_to_drug_therapy_start>
+                <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">115</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <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="1488169">Chemotherapy</rx:therapy_type>
+                    <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="1488170"/>
+                </rx:therapy_types>
+                <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="1488171">Cyclophosphamide</rx:drug_name>
+                <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"/>
+                <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="1488167">ADJUVANT</clin_shared:regimen_indication>
+                <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="1488168"/>
+                <rx:route_of_administrations>
+                    <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="1488177">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <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="1488181">NO</rx:therapy_ongoing>
+                <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"/>
+                <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="1488164">21</clin_shared:day_of_form_completion>
+                <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="1488163">12</clin_shared:month_of_form_completion>
+                <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="1488165">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+        </rx:drugs>
+        <rad:radiations>
+            <rad:radiation>
+                <rad:bcr_radiation_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-E2-A1II-R19959</rad:bcr_radiation_barcode>
+                <rad:bcr_radiation_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">0C04CF63-CC3C-4E0B-A37F-CAF63097FBAB</rad:bcr_radiation_uuid>
+                <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">181</rad:days_to_radiation_therapy_start>
+                <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">236</rad:days_to_radiation_therapy_end>
+                <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="1488259">EXTERNAL BEAM</rad:radiation_type>
+                <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="1488260"/>
+                <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="1488262">6040</rad:radiation_dosage>
+                <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="1488263">cGy</rad:units>
+                <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="1488264">33</rad:numfractions>
+                <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="1488261">Primary Tumor Field</rad:anatomic_treatment_site>
+                <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="1488257">ADJUVANT</clin_shared:regimen_indication>
+                <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="1488258"/>
+                <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="1488268">NO</rad:radiation_treatment_ongoing>
+                <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="1488256">1</rad:course_number>
+                <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"/>
+                <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="1488254">21</clin_shared:day_of_form_completion>
+                <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="1488253">12</clin_shared:month_of_form_completion>
+                <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="1488255">2011</clin_shared:year_of_form_completion>
+            </rad:radiation>
+        </rad:radiations>
+    </brca:patient>
+</brca:tcga_bcr>

data/gdc_data_organized/0fe1419e-a005-407c-8ae7-15c4c1579539/nationwidechildrens.org_ssf.TCGA-E2-A1II.xml

@@ -0,0 +1,110 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<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">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">BC6C4DAE-1341-44B1-994E-C79400DB4A96</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">117.79.0</admin:batch_number>
+        <admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+        <admin:patient_withdrawal>
+            <admin:withdrawn>false</admin:withdrawn>
+        </admin:patient_withdrawal>
+        <admin:program xsi:nil="true" xsd_ver="2.7"/>
+        <admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
+    </admin:admin>
+    <ssf:patient>
+        <admin:additional_studies/>
+        <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-E2-A1II</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">0fe1419e-a005-407c-8ae7-15c4c1579539</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">E2</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A1II</shared:patient_id>
+        <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"/>
+        <ssf:tumor_samples>
+            <ssf:tumor_sample>
+                <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">e70a8d1b-f29d-412f-8c90-85862a2b75ad</ssf:bcr_sample_uuid>
+                <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="">0</shared:days_to_sample_procurement>
+                <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="539854">Tumor Resection</shared:method_of_sample_procurement>
+                <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="Not Applicable" restricted="false" source_system_identifier="539855" xsi:nil="true"/>
+                <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="539856">Cryovial</ssf:vessel_used>
+                <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="539857"/>
+                <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"/>
+                <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="539858">200</ssf:tumor_weight>
+                <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="539861">YES</ssf:sample_prescreened>
+                <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="539859">95</shared:tumor_nuclei_percent>
+                <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="539860">0</shared:tumor_necrosis_percent>
+                <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">847</ssf:days_to_pathology_review>
+                <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="539997">YES</ssf:path_confirm_tumor_nuclei_metrics>
+                <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="539998">YES</ssf:path_confirm_tumor_necrosis_metrics>
+                <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="540000">YES</ssf:path_confirm_report_attached>
+                <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="539999">YES</ssf:path_confirm_diagnosis_matching>
+                <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"/>
+                <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="539862">YES</ssf:top_slide_submitted>
+                <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="539864">NO</ssf:digital_image_submitted>
+                <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>
+                <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"/>
+                <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="540002">No</shared:other_dx>
+                <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="540002">No</shared:history_of_neoadjuvant_treatment>
+                <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="540003">Consented</shared:consent_or_death_status>
+                <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">-8</shared:days_to_consent>
+                <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="741034"/>
+                <ssf_disease:disease_details/>
+                <ssf:tumor_histologies>
+                    <ssf:tumor_histology>
+                        <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="539847">Infiltrating Ductal Carcinoma</shared:histological_type>
+                        <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"/>
+                        <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"/>
+                        <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"/>
+                    </ssf:tumor_histology>
+                </ssf:tumor_histologies>
+                <ssf:tumor_locations>
+                    <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"/>
+                    <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="539850">Left</ssf:laterality>
+                    <ssf:tumor_location>
+                        <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="539850">Breast</ssf:site_of_disease>
+                        <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"/>
+                        <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="539850"/>
+                    </ssf:tumor_location>
+                </ssf:tumor_locations>
+            </ssf:tumor_sample>
+        </ssf:tumor_samples>
+        <ssf:normal_controls>
+            <ssf:normal_control>
+                <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">4f52879d-9cb9-4c91-9176-91a862c59a4d</ssf:bcr_sample_uuid>
+                <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="539977">Blood Draw</ssf:method_of_normal_sample_procurement>
+                <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="539978"/>
+                <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">-8</ssf:days_to_normal_sample_procurement>
+                <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="539979"/>
+                <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="539971">0.239</ssf:ncedna_dna_conc>
+                <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="539970">picogreen</ssf:ncedna_dna_qm>
+                <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="539969">20</ssf:ncedna_dna_qty>
+                <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="539972">84</ssf:ncedna_dna_vol>
+                <ssf:normal_control_locations>
+                    <ssf:normal_control_location>
+                        <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="Completed" restricted="false" source_system_identifier="539973">Other</ssf:normal_tissue_anatomic_site>
+                        <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 Available" restricted="false"/>
+                    </ssf:normal_control_location>
+                </ssf:normal_control_locations>
+            </ssf:normal_control>
+            <ssf:normal_control>
+                <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">5efb50ec-4251-451b-86c9-356afaa90ac6</ssf:bcr_sample_uuid>
+                <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="539963">Tumor Resection</ssf:method_of_normal_sample_procurement>
+                <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="539964"/>
+                <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">0</ssf:days_to_normal_sample_procurement>
+                <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="Completed" restricted="false" source_system_identifier="539965">Distal (>2cm)</ssf:normal_sample_site_proximity_to_tumor>
+                <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="Not Available" restricted="false" source_system_identifier="539957"/>
+                <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="Not Available" restricted="false" source_system_identifier="539956"/>
+                <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="Not Available" restricted="false" source_system_identifier="539955"/>
+                <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="Not Available" restricted="false" source_system_identifier="539958"/>
+                <ssf:normal_control_locations>
+                    <ssf:normal_control_location>
+                        <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="Completed" restricted="false" source_system_identifier="539959">Breast</ssf:normal_tissue_anatomic_site>
+                        <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"/>
+                    </ssf:normal_control_location>
+                </ssf:normal_control_locations>
+            </ssf:normal_control>
+        </ssf:normal_controls>
+    </ssf:patient>
+</ssf:tcga_bcr>

data/gdc_data_organized/1026e0bf-5640-4fa5-b65f-4f11e8e76b18/41321e81-2d74-43df-92b4-719a8b49d1c3_noid_Grn.idat

@@ -0,0 +1,3 @@
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+size 8091452

data/gdc_data_organized/1026e0bf-5640-4fa5-b65f-4f11e8e76b18/BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_F05_780926.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,212 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
+58be3d70-17bf-423e-86af-fd13b6b792a2	1	3301765	4383326	659	-0.2987
+58be3d70-17bf-423e-86af-fd13b6b792a2	1	4384479	4384646	2	-1.3892
+58be3d70-17bf-423e-86af-fd13b6b792a2	1	4385857	5850514	1155	-0.2536
+58be3d70-17bf-423e-86af-fd13b6b792a2	1	5851322	46758370	21488	-0.2902
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+58be3d70-17bf-423e-86af-fd13b6b792a2	20	47385120	47884704	306	1.3073
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	47884769	48726191	659	1.0243
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	48726277	49427654	415	0.5312
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	49432334	49479298	37	0.9949
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	49480944	49657680	58	0.49
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	49663013	49845455	45	0.9786
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	49848258	49948419	49	0.5607
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	49949335	50804934	528	0.9404
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	50807606	58743738	5809	1.0336
+58be3d70-17bf-423e-86af-fd13b6b792a2	20	58743774	63588502	3040	0.3967
+58be3d70-17bf-423e-86af-fd13b6b792a2	21	13974127	32143613	11665	-0.0078
+58be3d70-17bf-423e-86af-fd13b6b792a2	21	32143884	35048091	1843	-0.0477
+58be3d70-17bf-423e-86af-fd13b6b792a2	21	35048489	41620929	4989	-0.0051
+58be3d70-17bf-423e-86af-fd13b6b792a2	21	41621210	45711208	1824	-0.0481
+58be3d70-17bf-423e-86af-fd13b6b792a2	21	45713294	46262057	289	-0.0055
+58be3d70-17bf-423e-86af-fd13b6b792a2	22	16934932	37004043	9868	-0.0601
+58be3d70-17bf-423e-86af-fd13b6b792a2	22	37006739	37013754	15	-0.6655
+58be3d70-17bf-423e-86af-fd13b6b792a2	22	37026349	38284375	608	-0.0797
+58be3d70-17bf-423e-86af-fd13b6b792a2	22	38287631	42259432	1931	-0.1091
+58be3d70-17bf-423e-86af-fd13b6b792a2	22	42259763	48940621	4675	-0.0589
+58be3d70-17bf-423e-86af-fd13b6b792a2	X	3236359	26971217	10342	-0.0038
+58be3d70-17bf-423e-86af-fd13b6b792a2	X	26973642	26975447	4	2.8105
+58be3d70-17bf-423e-86af-fd13b6b792a2	X	26977419	30824436	2242	-0.0148
+58be3d70-17bf-423e-86af-fd13b6b792a2	X	30824573	30824644	2	3.6759
+58be3d70-17bf-423e-86af-fd13b6b792a2	X	30824727	155677414	51227	-0.0132

data/gdc_data_organized/1026e0bf-5640-4fa5-b65f-4f11e8e76b18/TCGA-BRCA.58be3d70-17bf-423e-86af-fd13b6b792a2.ascat3.allelic_specific.seg.txt

@@ -0,0 +1,67 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr1	61735	121741181	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr1	143285278	248930189	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr2	12784	242147305	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr3	18667	198169247	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr4	12281	177425960	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr4	177426951	186200741	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr4	186200855	190106768	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr5	15532	181363319	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr6	149661	170741917	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr7	43259	159334314	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	81254	18858023	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	18865019	19320116	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	19320261	38918967	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	38919628	46874450	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	46876115	48011587	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	48012280	50087456	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	50090435	50159453	7	5	2
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	50159557	51833290	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	51833440	52357798	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	52357918	52949299	4	2	2
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	52949407	54596966	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	54597293	54611193	4	2	2
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	54612078	56427246	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	56434567	56830243	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	56830828	57844792	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	57845098	139257302	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr8	139260597	145072769	5	4	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr9	46587	138200944	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr10	26823	133769379	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	198572	66475158	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	66476983	69018317	5	4	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	69018335	70389762	7	6	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	70390687	78902224	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	78911728	79322035	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	79325161	80245107	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	80245418	82804955	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr11	82805128	135074876	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr12	51460	34291867	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr12	34294984	34461584	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr12	34461752	133201603	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr13	18452809	114342922	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr14	18225647	22051298	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr14	22051406	22505306	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr14	22506715	106877229	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr15	19811075	101928837	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr16	10777	36048855	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr16	46429870	90221127	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr17	150733	6980000	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr17	6984359	17667513	1	1	0
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr17	17676547	83090856	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr18	48133	80257174	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr19	90910	58586487	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	80664	26268537	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	26271698	35280181	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	35283858	36950131	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	36952561	46504404	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	46507805	47378190	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	47385120	47866379	8	7	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	47869526	48743414	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	48743611	49657680	4	3	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	49663013	58743774	6	5	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr20	58745567	64324800	3	2	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr21	10336543	46677045	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chr22	15294545	50796027	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chrX	251810	2785350	2	1	1
+58be3d70-17bf-423e-86af-fd13b6b792a2	chrX	2785592	156004181	1	1	0

data/gdc_data_organized/1026e0bf-5640-4fa5-b65f-4f11e8e76b18/nationwidechildrens.org_biospecimen.TCGA-D8-A1XS.xml

@@ -0,0 +1,498 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<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">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">4D71C7ED-2A5A-4FB4-8D55-C8EAFE8DFBDF</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">124.81.0</admin:batch_number>
+        <admin:project_code xsd_ver="">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">1</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">7</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+    </admin:admin>
+    <bio:patient>
+        <admin:additional_studies/>
+        <shared:bcr_patient_barcode cde="2673794" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1026e0bf-5640-4fa5-b65f-4f11e8e76b18</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D8</shared:tissue_source_site>
+        <shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A1XS</shared:patient_id>
+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+        <bio:days_to_index precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">0</bio:days_to_index>
+        <bio:bcr_canonical_check>
+            <bio:bcr_patient_canonical_status cde="" xsd_ver="2.6" procurement_status="Completed" owner="">Canonical</bio:bcr_patient_canonical_status>
+        </bio:bcr_canonical_check>
+        <bio:samples>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:sample_type_id>
+                <bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
+                <bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Primary Tumor</bio:sample_type>
+                <bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">340</bio:initial_weight>
+                <bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
+                <bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">164</bio:days_to_collection>
+                <bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ef5821f3-677a-4bd3-9d99-d9cdd533cdb5</bio:bcr_sample_uuid>
+                <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                <bio:portions>
+                    <bio:shipment_portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">21</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</bio:portion_sequence>
+                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A17K</bio:plate_id>
+                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">20</bio:center_id>
+                        <bio:shipment_portion_day_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">8</bio:shipment_portion_month_of_shipment>
+                        <bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2011</bio:shipment_portion_year_of_shipment>
+                        <bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-21-A17K-20</bio:shipment_portion_bcr_aliquot_barcode>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">22EDABB4-30A0-4D5D-95F2-3EE9C3883FD1</bio:bcr_shipment_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                    </bio:shipment_portion>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0baf7951-6172-4b38-9814-d43f174bdc22</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.74</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a605f4bc-f345-4ae7-846d-4a16216cc70d</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14I</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11D-A14I-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7a15fc76-dcde-4b1b-bfcf-0a452e5117f1</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.21</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476161</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14J</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11D-A14J-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">58be3d70-17bf-423e-86af-fd13b6b792a2</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.13</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476833</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14K</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11D-A14K-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5d302c04-302e-4040-9429-37cd672e8d53</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.09</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.81</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476641</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14N</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11D-A14N-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">e2d77a0f-7b95-4ece-9264-a7330203011d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.54</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476706</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.77</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ce086b59-873b-4c5c-a9d7-49e6b1c40274</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14L</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11R-A14L-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">70e0ebd3-4a97-4db5-842f-240006484f8f</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.40</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">E</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100476560</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14M</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11R-A14M-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11b43261-66e4-4c28-8d24-6e38b4295f34</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.54</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">E</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100476563</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">mirVana (Allprep DNA) RNA</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:rna>
+                                    <bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.70</bio:ratio_28s_18s>
+                                    <bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8.50</bio:rinvalue>
+                                </bio:rna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">54B1B8E6-D748-4800-A877-D3E41BCC200C</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16I</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-11W-A16I-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5a00743d-5a2f-49d4-92b8-f67016562e9d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113420065</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">60</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">70</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">38</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-01-TS1</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0bbe79f5-903c-4ef1-a9fe-7479a1141316</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-D8-A1XS-01A-01-TS1.0bbe79f5-903c-4ef1-a9fe-7479a1141316.svs</shared:image_file_name>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                        </bio:slides>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">6C97C157-05A0-45CE-91E9-3DC8946EFEDE</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-D8-A1XS.6C97C157-05A0-45CE-91E9-3DC8946EFEDE.pdf</bio:pathology_report_file_name>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                    <bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E5C78E5A-947C-499D-9E95-619FEEC63E69</bio:ffpe_slide_uuid>
+                    <bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">ED8BBDB4-CEA6-4E47-8214-4666F3CC6E44</bio:ffpe_slide_uuid>
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+            </bio:sample>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">10</bio:sample_type_id>
+                <bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
+                <bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Blood Derived Normal</bio:sample_type>
+                <bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
+                <bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">164</bio:days_to_collection>
+                <bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d82c9020-b1ee-4be1-9249-0d251320004d</bio:bcr_sample_uuid>
+                <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                <bio:portions>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">18</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3da6dec6-785e-4efc-9f34-e8aa312fe93b</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.78</bio:a260_a280_ratio>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">598e392a-e263-4b95-a05d-c3e96935e3d2</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14I</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01D-A14I-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">df56602c-1b68-4845-8511-db824226c470</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.08</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476167</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14J</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01D-A14J-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0b6a0cb6-cef3-46fc-bb6c-7f4c41d5a799</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.16</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.07</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476839</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A14K</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">26</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">04</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01D-A14K-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9b6db1ae-c8eb-4b02-9913-76070077fedf</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.08</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.27</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">53.40</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0108476647</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <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>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F3180843-1934-4EF4-A44C-559D3727ECC6</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A16I</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2011</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-D8-A1XS-10A-01W-A16I-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f71b6127-0d32-4ff2-b239-9ce4c7a8a9da</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">H</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0113420071</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides/>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                </bio:diagnostic_slides>
+            </bio:sample>
+        </bio:samples>
+    </bio:patient>
+</bio:tcga_bcr>

data/gdc_data_organized/10c829ec-fd66-49c4-8afe-ad3ae567372c/CROZE_p_TCGA_254_256_255_N_GenomeWideSNP_6_C03_1301448.grch38.seg.v2.txt

@@ -0,0 +1,296 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
+40a0d96a-f155-4629-af76-604309ec7082	1	62920	34625857	18924	0.0043
+40a0d96a-f155-4629-af76-604309ec7082	1	34625993	34638890	23	-0.5858
+40a0d96a-f155-4629-af76-604309ec7082	1	34648667	72284670	23623	0.0014
+40a0d96a-f155-4629-af76-604309ec7082	1	72290430	72297687	9	-0.9163
+40a0d96a-f155-4629-af76-604309ec7082	1	72302735	72345465	48	0.956
+40a0d96a-f155-4629-af76-604309ec7082	1	72346221	103560608	19866	-0.0035
+40a0d96a-f155-4629-af76-604309ec7082	1	103566616	103616762	27	0.7256
+40a0d96a-f155-4629-af76-604309ec7082	1	103620877	103717410	5	-1.0779
+40a0d96a-f155-4629-af76-604309ec7082	1	103717617	105476583	910	-0.0001
+40a0d96a-f155-4629-af76-604309ec7082	1	105476614	105479753	16	0.6664
+40a0d96a-f155-4629-af76-604309ec7082	1	105481433	109690352	2620	0.006
+40a0d96a-f155-4629-af76-604309ec7082	1	109690415	109697556	12	1.2443
+40a0d96a-f155-4629-af76-604309ec7082	1	109702376	121601998	7093	-0.0021
+40a0d96a-f155-4629-af76-604309ec7082	1	121705338	143942271	129	0.5501
+40a0d96a-f155-4629-af76-604309ec7082	1	144432083	152790414	2513	-0.0096
+40a0d96a-f155-4629-af76-604309ec7082	1	152790427	152796224	22	-0.6072
+40a0d96a-f155-4629-af76-604309ec7082	1	152801429	158553881	3286	0.002
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+40a0d96a-f155-4629-af76-604309ec7082	1	158556794	191856724	22687	0.0032
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+40a0d96a-f155-4629-af76-604309ec7082	1	191902086	193186662	866	0.0226
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+40a0d96a-f155-4629-af76-604309ec7082	1	193187218	196745743	2378	0.0046
+40a0d96a-f155-4629-af76-604309ec7082	1	196758720	196936029	121	-0.9149
+40a0d96a-f155-4629-af76-604309ec7082	1	196940515	247999886	35075	0.0014
+40a0d96a-f155-4629-af76-604309ec7082	1	248002400	248008274	2	-2.3665
+40a0d96a-f155-4629-af76-604309ec7082	1	248010151	248930189	453	-0.0693
+40a0d96a-f155-4629-af76-604309ec7082	2	12784	3780503	2686	0.0037
+40a0d96a-f155-4629-af76-604309ec7082	2	3780519	3794149	15	-0.6531
+40a0d96a-f155-4629-af76-604309ec7082	2	3801922	13858402	7735	0.003
+40a0d96a-f155-4629-af76-604309ec7082	2	13858746	13858798	2	-1.7371
+40a0d96a-f155-4629-af76-604309ec7082	2	13862537	20729636	5119	0.0132
+40a0d96a-f155-4629-af76-604309ec7082	2	20731691	20738654	2	-1.6128
+40a0d96a-f155-4629-af76-604309ec7082	2	20740988	41011095	13205	0.0052
+40a0d96a-f155-4629-af76-604309ec7082	2	41011303	41018747	22	-1.6193
+40a0d96a-f155-4629-af76-604309ec7082	2	41024093	52527330	8133	0.0101
+40a0d96a-f155-4629-af76-604309ec7082	2	52527342	52554366	37	0.4555
+40a0d96a-f155-4629-af76-604309ec7082	2	52554384	78473831	16670	0.0058
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+        <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="2136780">Infiltrating Lobular Carcinoma</shared:histological_type>
+        <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="2136781" xsi:nil="true"/>
+        <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="2136761">Post (prior bilateral ovariectomy OR >12 mo since LMP with no prior hysterectomy)</clin_shared:menopause_status>
+        <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="2136814">Positive</brca_shared:breast_carcinoma_progesterone_receptor_status>
+        <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="Not Available" restricted="false" source_system_identifier="2136796"/>
+        <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" source_system_identifier="2136810"/>
+        <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="2136811"/>
+        <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="2136822">2+</brca_shared:her2_immunohistochemistry_level_result>
+        <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="2136793"/>
+        <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="2136790">Negative</clin_shared:margin_status>
+        <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="2136786">Core needle biopsy</clin_shared:initial_pathologic_diagnosis_method>
+        <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="2136787" xsi:nil="true"/>
+        <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="2136825">Equivocal</brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type>
+        <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="2136808">Positive</brca_shared:breast_carcinoma_estrogen_receptor_status>
+        <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="2136820">Positive</brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status>
+        <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="2136800">1</clin_shared:number_of_lymphnodes_positive_by_ihc>
+        <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="Not Available" restricted="false" source_system_identifier="2136799"/>
+        <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="2136818"/>
+        <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="2136812"/>
+        <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="2136821"/>
+        <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="2136823"/>
+        <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="2136824"/>
+        <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="2136828"/>
+        <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="2136830"/>
+        <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="2136831"/>
+        <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="2136711">YES</clin_shared:tissue_prospective_collection_indicator>
+        <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="2136712">NO</clin_shared:tissue_retrospective_collection_indicator>
+        <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="2136827"/>
+        <brca:first_nonlymph_node_metastasis_anatomic_sites>
+            <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="2136806"/>
+            <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="2136807"/>
+        </brca:first_nonlymph_node_metastasis_anatomic_sites>
+        <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="2136809"/>
+        <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="2136815"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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"/>
+        <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="2136826"/>
+        <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" source_system_identifier="2136816"/>
+        <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="2136817"/>
+        <shared_stage:stage_event system="AJCC">
+            <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="Completed" restricted="false" source_system_identifier="2136801">7th</shared_stage:system_version>
+            <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"/>
+            <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="2136805">Stage IIA</shared_stage:pathologic_stage>
+            <shared_stage:tnm_categories>
+                <shared_stage:clinical_categories>
+                    <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"/>
+                    <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"/>
+                    <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"/>
+                </shared_stage:clinical_categories>
+                <shared_stage:pathologic_categories>
+                    <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="2136802">T2</shared_stage:pathologic_T>
+                    <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="2136803">N0 (i+)</shared_stage:pathologic_N>
+                    <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="2136804">M0</shared_stage:pathologic_M>
+                </shared_stage:pathologic_categories>
+            </shared_stage:tnm_categories>
+            <shared_stage:psa>
+                <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"/>
+                <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"/>
+            </shared_stage:psa>
+            <shared_stage:gleason_grading>
+                <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"/>
+                <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"/>
+                <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"/>
+                <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"/>
+            </shared_stage:gleason_grading>
+            <shared_stage:ann_arbor>
+                <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"/>
+                <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"/>
+            </shared_stage:ann_arbor>
+            <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"/>
+            <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"/>
+            <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"/>
+        </shared_stage:stage_event>
+        <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="2136777">NO</clin_shared:postoperative_rx_tx>
+        <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="2136776">NO</clin_shared:radiation_therapy>
+        <brca_nte:new_tumor_events>
+            <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="2136832">NO</nte:new_tumor_event_after_initial_treatment>
+            <brca_nte:new_tumor_event>
+                <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"/>
+                <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="2136833"/>
+                <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="2136834"/>
+                <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="2136835"/>
+                <nte:new_tumor_event_additional_surgery_procedure preferred_name="new_tumor_event_surgery" display_order="90" cde="3427611" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="2136840"/>
+                <nte:days_to_new_tumor_event_additional_surgery_procedure precision="day" xsd_ver="2.5" tier="2" cde="3008335" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to" display_order="94" cde_ver="1.000"/>
+                <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="2136845"/>
+                <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="2136846"/>
+                <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="2136847"/>
+                <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="2136848"/>
+                <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="2136849"/>
+                <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="2136850"/>
+                <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="2136851"/>
+                <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="2136852"/>
+                <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="2136853"/>
+                <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="2136854"/>
+                <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="2136855"/>
+                <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="2136856"/>
+                <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="2136857"/>
+                <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="2136858"/>
+                <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="2136859"/>
+                <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="2136860"/>
+                <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="2136861"/>
+                <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="2136862"/>
+                <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="2136863"/>
+                <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="2136864"/>
+                <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="2136865"/>
+                <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="2136866"/>
+                <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="2136867"/>
+                <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="2136868"/>
+                <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="2136869"/>
+                <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="2136870"/>
+            </brca_nte:new_tumor_event>
+        </brca_nte:new_tumor_events>
+        <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">28</clin_shared:day_of_form_completion>
+        <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">9</clin_shared:month_of_form_completion>
+        <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">2012</clin_shared:year_of_form_completion>
+        <brca:follow_ups>
+            <follow_up_v4.0:follow_up version="4.0" sequence="1">
+                <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-BH-A42T-F61922</clin_shared:bcr_followup_barcode>
+                <clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">94A68C9F-6AE9-4265-8FB9-C05BC75D0B91</clin_shared:bcr_followup_uuid>
+                <clin_shared:lost_follow_up preferred_name="followup_lost_to" display_order="4" cde="61333" cde_ver="3.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="3714816">NO</clin_shared:lost_follow_up>
+                <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="3714817">NO</clin_shared:radiation_therapy>
+                <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="3714818">NO</clin_shared:postoperative_rx_tx>
+                <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="3714819">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+                <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="3714820">Dead</clin_shared:vital_status>
+                <clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Not Available" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000"/>
+                <clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Completed" preferred_name="death_days_to" display_order="25" cde_ver="1.000">320</clin_shared:days_to_death>
+                <brca_nte:new_tumor_events>
+                    <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="3714829">NO</nte:new_tumor_event_after_initial_treatment>
+                    <brca_nte:new_tumor_event>
+                        <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"/>
+                        <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="3714830"/>
+                        <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="3714831"/>
+                        <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="3714832"/>
+                        <nte:new_tumor_event_additional_surgery_procedure preferred_name="new_tumor_event_surgery" display_order="90" cde="3427611" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="3714837"/>
+                        <nte:days_to_new_tumor_event_additional_surgery_procedure precision="day" xsd_ver="2.5" tier="2" cde="3008335" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to" display_order="94" cde_ver="1.000"/>
+                        <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="3714842"/>
+                        <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="3714843"/>
+                        <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="3714844"/>
+                        <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="3714845"/>
+                        <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="3714846"/>
+                        <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="3714847"/>
+                        <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="3714848"/>
+                        <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="3714849"/>
+                        <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="3714850"/>
+                        <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="3714851"/>
+                        <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="3714852"/>
+                        <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="3714853"/>
+                        <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="3714854"/>
+                        <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="3714855"/>
+                        <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="3714856"/>
+                        <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="3714857"/>
+                        <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="3714858"/>
+                        <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="3714859"/>
+                        <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="3714860"/>
+                        <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="3714861"/>
+                        <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="3714862"/>
+                        <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="3714863"/>
+                        <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="3714864"/>
+                        <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="3714865"/>
+                        <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="3714866"/>
+                        <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="3714867"/>
+                    </brca_nte:new_tumor_event>
+                </brca_nte:new_tumor_events>
+                <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">10</clin_shared:day_of_form_completion>
+                <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">7</clin_shared:month_of_form_completion>
+                <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">2014</clin_shared:year_of_form_completion>
+            </follow_up_v4.0:follow_up>
+        </brca:follow_ups>
+        <rx:drugs/>
+        <rad:radiations/>
+    </brca:patient>
+</brca:tcga_bcr>

data/gdc_data_organized/10c829ec-fd66-49c4-8afe-ad3ae567372c/nationwidechildrens.org_ssf.TCGA-BH-A42T.xml

@@ -0,0 +1,88 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<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">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">6026ACAD-82FB-47C0-94C9-B3808B8AD25C</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">255.57.0</admin:batch_number>
+        <admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+        <admin:patient_withdrawal>
+            <admin:withdrawn>false</admin:withdrawn>
+        </admin:patient_withdrawal>
+        <admin:program xsi:nil="true" xsd_ver="2.7"/>
+        <admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
+    </admin:admin>
+    <ssf:patient>
+        <admin:additional_studies/>
+        <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-BH-A42T</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">10C829EC-FD66-49C4-8AFE-AD3AE567372C</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">BH</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A42T</shared:patient_id>
+        <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"/>
+        <ssf:tumor_samples>
+            <ssf:tumor_sample>
+                <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">312A82EE-9236-4282-B5EB-EE6063BABF5A</ssf:bcr_sample_uuid>
+                <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="">29</shared:days_to_sample_procurement>
+                <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="2012579">Simple Mastectomy</shared:method_of_sample_procurement>
+                <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="Not Applicable" restricted="false" source_system_identifier="2012580" xsi:nil="true"/>
+                <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="2012583">Other</ssf:vessel_used>
+                <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="Completed" restricted="false" source_system_identifier="2012584">Biospecimen Storage Bag</ssf:other_vessel_used>
+                <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"/>
+                <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="2012589">160</ssf:tumor_weight>
+                <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="2012585">YES</ssf:sample_prescreened>
+                <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="2012590">70</shared:tumor_nuclei_percent>
+                <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="2012591">0</shared:tumor_necrosis_percent>
+                <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">64</ssf:days_to_pathology_review>
+                <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="2012638">YES</ssf:path_confirm_tumor_nuclei_metrics>
+                <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="2012639">YES</ssf:path_confirm_tumor_necrosis_metrics>
+                <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="2012640">YES</ssf:path_confirm_report_attached>
+                <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="2012642">YES</ssf:path_confirm_diagnosis_matching>
+                <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" source_system_identifier="2012643"/>
+                <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="2012586">YES</ssf:top_slide_submitted>
+                <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="2012587">NO</ssf:digital_image_submitted>
+                <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>
+                <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"/>
+                <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="2012644">No</shared:other_dx>
+                <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="2012645">No</shared:history_of_neoadjuvant_treatment>
+                <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="2012646">Consented</shared:consent_or_death_status>
+                <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">11</shared:days_to_consent>
+                <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="Completed" restricted="false" source_system_identifier="2012581">United States</shared:country>
+                <ssf_disease:disease_details/>
+                <ssf:tumor_histologies>
+                    <ssf:tumor_histology>
+                        <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="2012571">Infiltrating Lobular Carcinoma</shared:histological_type>
+                        <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"/>
+                        <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"/>
+                        <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"/>
+                    </ssf:tumor_histology>
+                </ssf:tumor_histologies>
+                <ssf:tumor_locations>
+                    <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"/>
+                    <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="2012574">Left</ssf:laterality>
+                    <ssf:tumor_location>
+                        <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="2012574">Breast</ssf:site_of_disease>
+                        <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"/>
+                        <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="2012574"/>
+                    </ssf:tumor_location>
+                </ssf:tumor_locations>
+            </ssf:tumor_sample>
+        </ssf:tumor_samples>
+        <ssf:normal_controls>
+            <ssf:normal_control>
+                <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">4F2B8C1D-44BC-4448-BEDB-BB487E6AB2A3</ssf:bcr_sample_uuid>
+                <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="2012608">Blood Draw</ssf:method_of_normal_sample_procurement>
+                <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"/>
+                <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">29</ssf:days_to_normal_sample_procurement>
+                <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"/>
+                <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="Not Available" restricted="false"/>
+                <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="Not Available" restricted="false"/>
+                <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="Not Available" restricted="false"/>
+                <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="Not Available" restricted="false"/>
+                <ssf:normal_control_locations/>
+            </ssf:normal_control>
+        </ssf:normal_controls>
+    </ssf:patient>
+</ssf:tcga_bcr>

data/gdc_data_organized/10c9be1e-2cc0-45e4-8d2c-c013ea63ef05/2cda1e79-db79-4664-bf72-2e8327b61ae2.mirbase21.mirnas.quantification.txt

@@ -0,0 +1,1882 @@
+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	27072	13992.896042	N
+hsa-let-7a-2	26741	13821.809731	N
+hsa-let-7a-3	27170	14043.549994	N
+hsa-let-7b	102645	53054.846860	N
+hsa-let-7c	7572	3913.793175	N
+hsa-let-7d	790	408.332885	N
+hsa-let-7e	1339	692.098397	N
+hsa-let-7f-1	3462	1789.428417	N
+hsa-let-7f-2	3518	1818.373533	N
+hsa-let-7g	923	477.077536	N
+hsa-let-7i	1376	711.222848	N
+hsa-mir-1-1	1	0.516877	N
+hsa-mir-1-2	4	2.067508	N
+hsa-mir-100	3729	1927.434594	N
+hsa-mir-101-1	6566	3393.814842	N
+hsa-mir-101-2	6567	3394.331719	N
+hsa-mir-103a-1	27173	14045.100626	Y
+hsa-mir-103a-2	26555	13725.670596	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	3	1.550631	N
+hsa-mir-105-2	4	2.067508	N
+hsa-mir-106a	21	10.854418	Y
+hsa-mir-106b	268	138.523055	N
+hsa-mir-107	90	46.518936	Y
+hsa-mir-10a	35368	18280.908215	N
+hsa-mir-10b	171249	88514.681376	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	0	0.000000	N
+hsa-mir-1180	4	2.067508	N
+hsa-mir-1181	0	0.000000	N
+hsa-mir-1182	0	0.000000	N
+hsa-mir-1183	0	0.000000	N
+hsa-mir-1184-1	0	0.000000	N
+hsa-mir-1184-2	0	0.000000	N
+hsa-mir-1184-3	0	0.000000	N
+hsa-mir-1185-1	0	0.000000	N
+hsa-mir-1185-2	0	0.000000	N
+hsa-mir-1193	0	0.000000	N
+hsa-mir-1197	0	0.000000	N
+hsa-mir-1199	0	0.000000	N
+hsa-mir-1200	0	0.000000	N
+hsa-mir-1202	0	0.000000	N
+hsa-mir-1203	0	0.000000	N
+hsa-mir-1204	0	0.000000	N
+hsa-mir-1205	0	0.000000	N
+hsa-mir-1206	0	0.000000	N
+hsa-mir-1207	0	0.000000	N
+hsa-mir-1208	0	0.000000	N
+hsa-mir-122	0	0.000000	N
+hsa-mir-1224	0	0.000000	N
+hsa-mir-1225	0	0.000000	N
+hsa-mir-1226	1	0.516877	N
+hsa-mir-1227	0	0.000000	N
+hsa-mir-1228	0	0.000000	N
+hsa-mir-1229	1	0.516877	N
+hsa-mir-1231	0	0.000000	N
+hsa-mir-1233-1	0	0.000000	N
+hsa-mir-1233-2	0	0.000000	N
+hsa-mir-1234	2	1.033754	N
+hsa-mir-1236	0	0.000000	N
+hsa-mir-1237	0	0.000000	N
+hsa-mir-1238	0	0.000000	N
+hsa-mir-124-1	0	0.000000	N
+hsa-mir-124-2	0	0.000000	N
+hsa-mir-124-3	0	0.000000	N
+hsa-mir-1243	0	0.000000	N
+hsa-mir-1244-1	0	0.000000	N
+hsa-mir-1244-2	0	0.000000	N
+hsa-mir-1244-3	0	0.000000	N
+hsa-mir-1244-4	0	0.000000	N
+hsa-mir-1245a	12	6.202525	N
+hsa-mir-1245b	0	0.000000	N
+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	17	8.786910	N
+hsa-mir-1248	0	0.000000	N
+hsa-mir-1249	1	0.516877	N
+hsa-mir-1250	0	0.000000	N
+hsa-mir-1251	0	0.000000	N
+hsa-mir-1252	0	0.000000	N
+hsa-mir-1253	0	0.000000	N
+hsa-mir-1254-1	0	0.000000	N
+hsa-mir-1254-2	0	0.000000	N
+hsa-mir-1255a	0	0.000000	N
+hsa-mir-1255b-1	0	0.000000	N
+hsa-mir-1255b-2	0	0.000000	N
+hsa-mir-1256	0	0.000000	N
+hsa-mir-1257	0	0.000000	N
+hsa-mir-1258	4	2.067508	N
+hsa-mir-125a	1154	596.476139	N
+hsa-mir-125b-1	371	191.761393	N
+hsa-mir-125b-2	425	219.672755	N
+hsa-mir-126	9835	5083.485984	N
+hsa-mir-1260a	0	0.000000	N
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+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	12	6.202525	N
+hsa-mir-1267	0	0.000000	N
+hsa-mir-1268a	0	0.000000	N
+hsa-mir-1268b	0	0.000000	N
+hsa-mir-1269a	132	68.227773	N
+hsa-mir-1269b	0	0.000000	N
+hsa-mir-127	743	384.039663	N
+hsa-mir-1270	0	0.000000	N
+hsa-mir-1271	3	1.550631	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
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+hsa-mir-1273g	0	0.000000	N
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+hsa-mir-1275	0	0.000000	N
+hsa-mir-1276	0	0.000000	N
+hsa-mir-1277	4	2.067508	N
+hsa-mir-1278	0	0.000000	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	28	14.472558	N
+hsa-mir-128-2	13	6.719402	N
+hsa-mir-1281	0	0.000000	N
+hsa-mir-1282	0	0.000000	N
+hsa-mir-1283-1	0	0.000000	N
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+hsa-mir-1284	0	0.000000	N
+hsa-mir-1285-1	0	0.000000	N
+hsa-mir-1285-2	0	0.000000	N
+hsa-mir-1286	0	0.000000	N
+hsa-mir-1287	14	7.236279	N
+hsa-mir-1288	2	1.033754	N
+hsa-mir-1289-1	0	0.000000	N
+hsa-mir-1289-2	0	0.000000	N
+hsa-mir-129-1	0	0.000000	N
+hsa-mir-129-2	0	0.000000	N
+hsa-mir-1290	0	0.000000	N
+hsa-mir-1291	2	1.033754	N
+hsa-mir-1292	0	0.000000	N
+hsa-mir-1293	0	0.000000	N
+hsa-mir-1294	0	0.000000	N
+hsa-mir-1295a	1	0.516877	N
+hsa-mir-1295b	0	0.000000	N
+hsa-mir-1296	5	2.584385	N
+hsa-mir-1297	0	0.000000	N
+hsa-mir-1298	0	0.000000	N
+hsa-mir-1299	0	0.000000	N
+hsa-mir-1301	8	4.135017	N
+hsa-mir-1302-1	0	0.000000	N
+hsa-mir-1302-10	0	0.000000	N
+hsa-mir-1302-11	0	0.000000	N
+hsa-mir-1302-2	0	0.000000	N
+hsa-mir-1302-3	0	0.000000	N
+hsa-mir-1302-4	0	0.000000	N
+hsa-mir-1302-5	0	0.000000	N
+hsa-mir-1302-6	0	0.000000	N
+hsa-mir-1302-7	0	0.000000	N
+hsa-mir-1302-8	0	0.000000	N
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+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	5	2.584385	N
+hsa-mir-1307	354	182.974483	N
+hsa-mir-130a	245	126.634882	N
+hsa-mir-130b	12	6.202525	N
+hsa-mir-132	213	110.094816	N
+hsa-mir-1321	0	0.000000	N
+hsa-mir-1322	0	0.000000	N
+hsa-mir-1323	0	0.000000	N
+hsa-mir-1324	0	0.000000	N
+hsa-mir-133a-1	4	2.067508	N
+hsa-mir-133a-2	3	1.550631	N
+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	465	240.347838	N
+hsa-mir-1343	0	0.000000	N
+hsa-mir-135a-1	3	1.550631	N
+hsa-mir-135a-2	7	3.618139	N
+hsa-mir-135b	5	2.584385	N
+hsa-mir-136	45	23.259468	N
+hsa-mir-137	0	0.000000	N
+hsa-mir-138-1	0	0.000000	N
+hsa-mir-138-2	1	0.516877	N
+hsa-mir-139	206	106.476676	N
+hsa-mir-140	1224	632.657534	N
+hsa-mir-141	3800	1964.132866	N
+hsa-mir-142	675	348.892022	N
+hsa-mir-143	12432	6425.815735	N
+hsa-mir-144	127	65.643388	N
+hsa-mir-145	7151	3696.187928	N
+hsa-mir-1468	4	2.067508	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	98	50.653953	N
+hsa-mir-146b	1168	603.712418	N
+hsa-mir-1470	0	0.000000	N
+hsa-mir-1471	0	0.000000	N
+hsa-mir-147a	0	0.000000	N
+hsa-mir-147b	1	0.516877	N
+hsa-mir-148a	36930	19088.270199	N
+hsa-mir-148b	222	114.746710	N
+hsa-mir-149	147	75.980929	N
+hsa-mir-150	151	78.048438	N
+hsa-mir-151a	1539	795.473811	N
+hsa-mir-151b	1	0.516877	N
+hsa-mir-152	173	89.419733	N
+hsa-mir-153-1	5	2.584385	N
+hsa-mir-153-2	34	17.573820	N
+hsa-mir-1537	0	0.000000	N
+hsa-mir-1538	0	0.000000	N
+hsa-mir-1539	0	0.000000	N
+hsa-mir-154	9	4.651894	N
+hsa-mir-155	267	138.006178	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	343	177.288835	N
+hsa-mir-15b	599	309.609365	N
+hsa-mir-16-1	590	304.957471	N
+hsa-mir-16-2	602	311.159996	N
+hsa-mir-17	584	301.856209	Y
+hsa-mir-181a-1	4343	2244.797115	N
+hsa-mir-181a-2	3928	2030.293131	N
+hsa-mir-181b-1	688	355.611424	N
+hsa-mir-181b-2	746	385.590294	N
+hsa-mir-181c	135	69.778404	N
+hsa-mir-181d	37	19.124452	N
+hsa-mir-182	54416	28126.382646	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	14468	7478.177450	N
+hsa-mir-184	7	3.618139	N
+hsa-mir-185	81	41.867043	N
+hsa-mir-186	491	253.786641	N
+hsa-mir-187	3	1.550631	N
+hsa-mir-188	0	0.000000	N
+hsa-mir-18a	4	2.067508	N
+hsa-mir-18b	0	0.000000	N
+hsa-mir-1908	0	0.000000	N
+hsa-mir-1909	0	0.000000	N
+hsa-mir-190a	9	4.651894	N
+hsa-mir-190b	63	32.563255	N
+hsa-mir-191	2398	1239.471214	N
+hsa-mir-1910	0	0.000000	N
+hsa-mir-1911	0	0.000000	N
+hsa-mir-1912	0	0.000000	N
+hsa-mir-1913	0	0.000000	N
+hsa-mir-1914	0	0.000000	N
+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	304	157.130629	N
+hsa-mir-193a	408	210.885845	N
+hsa-mir-193b	76	39.282657	N
+hsa-mir-194-1	119	61.508371	N
+hsa-mir-194-2	120	62.025248	N
+hsa-mir-195	73	37.732026	N
+hsa-mir-196a-1	31	16.023189	N
+hsa-mir-196a-2	61	31.529501	N
+hsa-mir-196b	184	95.105381	N
+hsa-mir-197	337	174.187573	N
+hsa-mir-1972-1	0	0.000000	N
+hsa-mir-1972-2	0	0.000000	N
+hsa-mir-1973	0	0.000000	N
+hsa-mir-1976	6	3.101262	N
+hsa-mir-198	0	0.000000	N
+hsa-mir-199a-1	4669	2413.299040	Y
+hsa-mir-199a-2	6649	3436.715639	Y
+hsa-mir-199b	6681	3453.255705	Y
+hsa-mir-19a	23	11.888173	N
+hsa-mir-19b-1	134	69.261527	N
+hsa-mir-19b-2	134	69.261527	N
+hsa-mir-200a	1195	617.668099	N
+hsa-mir-200b	1845	953.638194	N
+hsa-mir-200c	22738	11752.750820	N
+hsa-mir-202	0	0.000000	N
+hsa-mir-203a	17245	8913.545074	N
+hsa-mir-203b	144	74.430298	N
+hsa-mir-204	3	1.550631	N
+hsa-mir-205	7029	3633.128926	N
+hsa-mir-2052	0	0.000000	N
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+hsa-mir-206	0	0.000000	N
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+hsa-mir-20a	395	204.166443	N
+hsa-mir-20b	39	20.158206	N
+hsa-mir-21	497547	257170.635593	N
+hsa-mir-210	209	108.027308	N
+hsa-mir-211	0	0.000000	N
+hsa-mir-2110	2	1.033754	N
+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	1	0.516877	N
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+hsa-mir-2116	0	0.000000	N
+hsa-mir-2117	1	0.516877	N
+hsa-mir-212	3	1.550631	N
+hsa-mir-214	99	51.170830	N
+hsa-mir-215	3	1.550631	N
+hsa-mir-216a	0	0.000000	N
+hsa-mir-216b	0	0.000000	N
+hsa-mir-217	15	7.753156	N
+hsa-mir-218-1	74	38.248903	N
+hsa-mir-218-2	55	28.428239	N
+hsa-mir-219a-1	1	0.516877	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	0	0.000000	N
+hsa-mir-22	79928	41312.950458	N
+hsa-mir-221	147	75.980929	N
+hsa-mir-222	36	18.607575	N
+hsa-mir-223	157	81.149700	N
+hsa-mir-224	34	17.573820	N
+hsa-mir-2276	0	0.000000	N
+hsa-mir-2277	0	0.000000	N
+hsa-mir-2278	0	0.000000	N
+hsa-mir-2355	31	16.023189	N
+hsa-mir-2392	0	0.000000	N
+hsa-mir-23a	5357	2768.910464	Y
+hsa-mir-23b	902	466.223117	Y
+hsa-mir-23c	0	0.000000	N
+hsa-mir-24-1	428	221.223386	N
+hsa-mir-24-2	427	220.706509	N
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+hsa-mir-25	10878	5622.588768	N
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+hsa-mir-26a-1	1108	572.699794	N
+hsa-mir-26a-2	1104	570.632285	N
+hsa-mir-26b	1544	798.058196	N
+hsa-mir-27a	750	387.657803	Y
+hsa-mir-27b	475	245.516608	Y
+hsa-mir-28	4927	2546.653324	N
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+hsa-mir-29a	6040	3121.937503	N
+hsa-mir-29b-1	895	462.604978	N
+hsa-mir-29b-2	1102	569.598531	N
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+hsa-mir-30a	490345	253448.086935	N
+hsa-mir-30b	926	478.628167	N
+hsa-mir-30c-1	1988	1027.551615	N
+hsa-mir-30c-2	2312	1195.019786	N
+hsa-mir-30d	22163	11455.546504	N
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+hsa-mir-3199-2	1	0.516877	N
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+hsa-mir-3202-2	0	0.000000	N
+hsa-mir-320a	955	493.617602	N
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+hsa-mir-320b-2	1	0.516877	N
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+hsa-mir-323a	7	3.618139	N
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+hsa-mir-324	62	32.046378	N
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+hsa-mir-328	22	11.371296	N
+hsa-mir-329-1	2	1.033754	N
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+hsa-mir-330	11	5.685648	N
+hsa-mir-331	6	3.101262	N
+hsa-mir-335	143	73.913421	N
+hsa-mir-337	49	25.326976	N
+hsa-mir-338	1228	634.725042	N
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+hsa-mir-33b	0	0.000000	N
+hsa-mir-340	30	15.506312	N
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+hsa-mir-346	0	0.000000	N
+hsa-mir-34a	287	148.343719	N
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+hsa-mir-3591	0	0.000000	N
+hsa-mir-3605	3	1.550631	N
+hsa-mir-3606	0	0.000000	N
+hsa-mir-3607	47	24.293222	N
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+hsa-mir-361	446	230.527173	N
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+hsa-mir-3611	0	0.000000	N
+hsa-mir-3612	0	0.000000	N
+hsa-mir-3613	20	10.337541	N
+hsa-mir-3614	1	0.516877	N
+hsa-mir-3615	1	0.516877	N
+hsa-mir-3616	1	0.516877	N
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+hsa-mir-484	49	25.326976	N
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+hsa-mir-5009	0	0.000000	N
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+hsa-mir-583	0	0.000000	N
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+hsa-mir-586	0	0.000000	N
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+hsa-mir-600	0	0.000000	N
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data/gdc_data_organized/10c9be1e-2cc0-45e4-8d2c-c013ea63ef05/TCGA-AN-A0FS-01A-01-BSA.030e8ca6-2dd3-41ad-aae4-e69b803dbcaa.svs

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data/gdc_data_organized/10c9be1e-2cc0-45e4-8d2c-c013ea63ef05/TCGA-AN-A0FS-01A-11D-A891-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt

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data/gdc_data_organized/1133b8a9-6b11-4511-b70a-f200e3b8b5db/CELLA_p_TCGA_177_179_Esph_SNP_N_GenomeWideSNP_6_E05_871108.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,46 @@
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