Auto-upload batch data to clear storage

.gitattributes

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data/__notebook__.ipynb

@@ -44950,6 +44950,1640 @@
      },
      "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",
+      "[5458/10000] (15.45GB) Downloading: TCGA-BRCA.49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5459/10000] (0.00GB) Downloading: TCGA-A2-A0ER-01A-11-A13C-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5460/10000] (0.00GB) Downloading: 71506f7c-e42b-4b6f-9863-8a42487627b6_noid_Red.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5461/10000] (0.00GB) Downloading: TCGA-A2-A0ER-01A-21D-A891-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5462/10000] (0.00GB) Downloading: TCGA-A2-A0YI.CEFD12BB-1AF7-400D-8A84-49650DFDD8A5.PDF (0.25 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5463/10000] (0.00GB) Downloading: TCGA-A2-A0YI-01Z-00-DX1.1CF2EC2D-C722-467F-8832-409B823E8D8F.svs (911.76 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5464/10000] (0.89GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A2-A0YI.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5465/10000] (0.89GB) Downloading: 6c22c3e5-a00a-4ae4-a1a7-096efa3c290a.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5466/10000] (0.89GB) Downloading: TCGA-BRCA.ec2186e9-17fc-49c1-a3f2-81f51faf1fc7.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5467/10000] (0.90GB) Downloading: GAMMA_p_TCGA_b103_104_SNP_N_GenomeWideSNP_6_H06_755850.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5468/10000] (0.90GB) Downloading: TCGA-A2-A0YI-01A-03-BSC.29006cd1-80d6-4b68-a760-ba91a34b9942.svs (200.76 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5469/10000] (1.09GB) Downloading: TCGA-A2-A0YI-01A-31D-A894-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5470/10000] (1.09GB) Downloading: 81c92712-e0a1-4c03-b4b3-1fb7492ba008.methylation_array.sesame.level3betas.txt (12.39 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5471/10000] (1.10GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_H03_666896.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5472/10000] (1.10GB) Downloading: 81c92712-e0a1-4c03-b4b3-1fb7492ba008_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5473/10000] (1.11GB) Downloading: TCGA-BRCA.49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5474/10000] (1.12GB) Downloading: TCGA-A2-A0YI-01A-03-TSC.315f5bb4-4ef4-471e-b5b4-ae73a6038c20.svs (186.81 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5475/10000] (1.30GB) Downloading: TCGA-A2-A0ER.A5D94D02-5423-4055-96E3-B5AA5799DC02.PDF (0.15 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5476/10000] (1.30GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A2-A0ER.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5477/10000] (1.30GB) Downloading: 2499ced3-14f2-4c86-94f2-2a352c57b580.methylation_array.sesame.level3betas.txt (12.53 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5478/10000] (1.31GB) Downloading: 5d854663-f593-418f-a691-5797476ffb0d.mirbase21.isoforms.quantification.txt (0.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5479/10000] (1.31GB) Downloading: TCGA-B6-A408-01A-01-TS1.1D487FA0-42C1-4C5C-94A4-8D7F48EAB98F.svs (198.67 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5480/10000] (1.50GB) Downloading: nationwidechildrens.org_ssf.TCGA-B6-A408.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5481/10000] (1.50GB) Downloading: 866770c0-c4f1-4ed3-aa96-7ff4f7328323.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5482/10000] (1.51GB) Downloading: FENCE_p_TCGAb_332_333_334_NSP_GenomeWideSNP_6_E09_1367264.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5483/10000] (1.51GB) Downloading: 7fcb1019-2e56-48a6-9f11-857a2271c516_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5484/10000] (1.52GB) Downloading: TCGA-BRCA.456b1e0c-72a4-4850-b52b-8eecf5ecabd8.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5485/10000] (1.52GB) Downloading: 90e1e5bb-b2a8-4d1e-add2-6f22e6b34028.methylation_array.sesame.level3betas.txt (0.74 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5486/10000] (1.52GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_C01_666986.nocnv_grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5487/10000] (1.52GB) Downloading: TCGA-BRCA.a96dcbf3-d86b-4747-810d-f6d9751d273e.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5488/10000] (1.52GB) Downloading: TCGA-BRCA.2d33342b-a41f-4bb1-9226-1b5058209488.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5489/10000] (1.53GB) Downloading: 7fe85577-b739-4772-bdf2-fc8280d7905a.mirbase21.isoforms.quantification.txt (0.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5490/10000] (1.53GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_D01_666888.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5491/10000] (1.53GB) Downloading: TCGA-BRCA.2d33342b-a41f-4bb1-9226-1b5058209488.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5492/10000] (1.53GB) Downloading: TCGA-A2-A04X-01A-02-BS2.e8b8e62b-18f3-47f1-8b53-94659913afda.svs (35.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5493/10000] (1.56GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AC-A6IX.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5494/10000] (1.56GB) Downloading: 6eaeaa1d-eb70-4ad1-8f3a-129f83ba1210_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5495/10000] (1.57GB) Downloading: TCGA-BRCA.98022470-8d33-46c2-b162-78626a3eb4b7.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5496/10000] (1.57GB) Downloading: 7fcb1019-2e56-48a6-9f11-857a2271c516_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5497/10000] (1.58GB) Downloading: FENCE_p_TCGAb_332_333_334_NSP_GenomeWideSNP_6_E10_1367332.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5498/10000] (1.58GB) Downloading: TCGA-BRCA.fd63fcef-ebac-4386-beb6-29d42bdae2d9.ascat3.gene_level_copy_number.v36.tsv (3.30 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5499/10000] (1.58GB) Downloading: TCGA-AC-A6IX-01A-21-A43F-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5500/10000] (1.58GB) Downloading: eb448c02-5c0d-4257-aa09-31528655980c.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5501/10000] (1.58GB) Downloading: nationwidechildrens.org_clinical.TCGA-E2-A1B0.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5502/10000] (1.58GB) Downloading: e4d75b63-c717-45e0-a3f4-5af5ecf1e07a.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5503/10000] (1.58GB) Downloading: dca76480-f316-45e4-9870-9e90676bdda4.mirbase21.isoforms.quantification.txt (0.30 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5504/10000] (1.58GB) Downloading: e4d75b63-c717-45e0-a3f4-5af5ecf1e07a.mirbase21.isoforms.quantification.txt (0.17 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5505/10000] (1.58GB) Downloading: 2569901d-cde8-418d-ae32-c2280d6b1f83_noid_Red.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5506/10000] (1.58GB) Downloading: 674907a1-381a-4952-924a-52e2adf5ad19.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5507/10000] (1.59GB) Downloading: TCGA-E2-A1B0-01Z-00-DX1.4C50EC91-A62A-450E-88C0-7DCAB8E9724C.svs (1334.84 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5508/10000] (2.89GB) Downloading: 6eaeaa1d-eb70-4ad1-8f3a-129f83ba1210_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5509/10000] (2.90GB) Downloading: dca76480-f316-45e4-9870-9e90676bdda4.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5510/10000] (2.90GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-E2-A1B0.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5511/10000] (2.90GB) Downloading: nationwidechildrens.org_clinical.TCGA-BH-A0DT.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5512/10000] (2.90GB) Downloading: JOUAL_p_TCGA_b96_SNP_N_GenomeWideSNP_6_B03_747910.grch38.seg.v2.txt (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5513/10000] (2.90GB) Downloading: 507de54a-b4a5-4778-99fc-2f4f45c6daa0.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5514/10000] (2.90GB) Downloading: HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_B12_741446.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5515/10000] (2.90GB) Downloading: HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_B12_741446.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5516/10000] (2.90GB) Downloading: TCGA-AO-A12A-01A-11-A13E-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5517/10000] (2.90GB) Downloading: TCGA-BRCA.cc9ee06d-27bf-4038-bbcd-c95693b96321.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5518/10000] (2.91GB) Downloading: CHEEP_p_TCGA_b120_121_SNP_N_GenomeWideSNP_6_E09_777698.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5519/10000] (2.91GB) Downloading: 30dbe353-86d5-40ed-84c2-dbddf7beb17b_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5520/10000] (2.91GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AO-A12A.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5521/10000] (2.91GB) Downloading: aa31ba87-1903-4ad5-9e33-9929f550fe1e.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5522/10000] (2.91GB) Downloading: TCGA-AO-A12A.A54E82A4-D7C2-4A5C-A69C-C66976F0282F.PDF (0.26 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5523/10000] (2.91GB) Downloading: 2ed88c3e-bf61-4e2f-b06c-0b93c9f9402e.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5524/10000] (2.91GB) Downloading: URAEI_p_TCGASNP_b85_N_GenomeWideSNP_6_C01_735156.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5525/10000] (2.91GB) Downloading: TCGA-AO-A12A-01Z-00-DX1.4E9609A7-9AAD-40A8-8344-8369DF998006.svs (865.51 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5526/10000] (3.76GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-BH-A0DT.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5527/10000] (3.76GB) Downloading: c03db44e-b4c3-4d95-831c-b160bca7d5f4.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5528/10000] (3.76GB) Downloading: TCGA-AO-A12A-01A-02-BSB.8694e753-cc5f-47e2-9317-4d3355fc355b.svs (210.16 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5529/10000] (3.96GB) Downloading: TCGA-BRCA.cc9ee06d-27bf-4038-bbcd-c95693b96321.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5530/10000] (3.96GB) Downloading: TCGA-BRCA.2bb73e92-de96-408c-a239-ed6999006c6f.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5531/10000] (3.97GB) Downloading: TCGA-BH-A0DT-01Z-00-DX1.73AFCEBB-06B1-4870-ADA2-881511B1BE2D.svs (561.65 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5532/10000] (4.51GB) Downloading: TCGA-BRCA.cc9ee06d-27bf-4038-bbcd-c95693b96321.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5533/10000] (4.51GB) Downloading: 2569901d-cde8-418d-ae32-c2280d6b1f83_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5534/10000] (4.51GB) Downloading: TCGA-AR-A5QM-01A-11D-A89D-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5535/10000] (4.51GB) Downloading: nationwidechildrens.org_clinical.TCGA-A2-A0D2.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5536/10000] (4.51GB) Downloading: 3e869cbe-1657-49b9-bc16-019f867202d3.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5537/10000] (4.51GB) Downloading: TCGA-BRCA.2bb73e92-de96-408c-a239-ed6999006c6f.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5538/10000] (4.52GB) Downloading: c430c2bc-2277-4227-a2b6-667099f2e619_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5539/10000] (4.53GB) Downloading: TCGA-E2-A14N-01Z-00-DX1.15F5644F-CA9F-4688-B56E-BCC00CA4769B.svs (1097.34 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5540/10000] (5.60GB) Downloading: 423e6077-5b60-497e-857f-75c63f7f7254.methylation_array.sesame.level3betas.txt (12.58 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5541/10000] (5.61GB) Downloading: dc560de0-d0a7-4b2f-9bc7-bb48f89d7db5_noid_Red.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5542/10000] (5.61GB) Downloading: TCGA-E2-A14N-01A-03-TSC.f25db7f7-db83-4011-9198-683dbc592da6.svs (139.67 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5543/10000] (5.75GB) Downloading: GAMMA_p_TCGA_b103_104_SNP_N_GenomeWideSNP_6_G01_755818.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5544/10000] (5.75GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A2-A04Y.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5545/10000] (5.75GB) Downloading: nationwidechildrens.org_ssf.TCGA-A2-A04Y.xml (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5546/10000] (5.75GB) Downloading: nationwidechildrens.org_clinical.TCGA-E2-A14N.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5547/10000] (5.75GB) Downloading: TCGA-BRCA.93a1aed5-c6cc-4e07-9060-fd6cead060b2.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5548/10000] (5.75GB) Downloading: GAMMA_p_TCGA_b103_104_SNP_N_GenomeWideSNP_6_G01_755818.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5549/10000] (5.75GB) Downloading: TCGA-BRCA.ec2186e9-17fc-49c1-a3f2-81f51faf1fc7.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5550/10000] (5.75GB) Downloading: dc560de0-d0a7-4b2f-9bc7-bb48f89d7db5_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5551/10000] (5.75GB) Downloading: TCGA-BRCA.93a1aed5-c6cc-4e07-9060-fd6cead060b2.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5552/10000] (5.75GB) Downloading: TCGA-BRCA.93a1aed5-c6cc-4e07-9060-fd6cead060b2.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5553/10000] (5.75GB) Downloading: 960df455-dab8-4c59-9a99-579cdabe4d19.rna_seq.augmented_star_gene_counts.tsv (4.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5554/10000] (5.75GB) Downloading: nationwidechildrens.org_ssf.TCGA-E2-A10C.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5555/10000] (5.75GB) Downloading: TCGA-BRCA.93a1aed5-c6cc-4e07-9060-fd6cead060b2.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5556/10000] (5.76GB) Downloading: f2ab022b-086e-491a-b9ff-d4b0a696a5da.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5557/10000] (5.76GB) Downloading: TCGA-E2-A10C-01A-02-BSB.98829461-a7d3-4e6d-a172-e7c17335c6e2.svs (185.93 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5558/10000] (5.94GB) Downloading: nationwidechildrens.org_omf.TCGA-A2-A04Y.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5559/10000] (5.94GB) Downloading: TCGA-A2-A04Y-01Z-00-DX1.4DC97AD6-4806-4A3A-A998-FD36F93590A4.svs (509.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5560/10000] (6.44GB) Downloading: TCGA-A2-A04Y-01A-02-BS2.0fd3867e-c47f-471c-b946-25b244d8c0e8.svs (303.80 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5561/10000] (6.73GB) Downloading: TCGA-A2-A04Y-01A-02-MS2.42e84e21-3226-4585-9865-3b624fca05bd.svs (189.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5562/10000] (6.92GB) Downloading: 4028f62d-550a-49b3-869a-355f1f6c6cca_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5563/10000] (6.93GB) Downloading: TCGA-E2-A10C-01Z-00-DX1.29A2B20B-29C6-4491-ADAB-0584C772EF25.svs (1072.93 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5564/10000] (7.97GB) Downloading: TCGA-BRCA.05cd681e-6864-4296-88d3-f3848bdaaf58.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5565/10000] (7.97GB) Downloading: TCGA-BRCA.47ba6d6f-734a-4e33-af3e-eef3783cc26b.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5566/10000] (7.97GB) Downloading: 7d118736-8504-45ac-8b08-14278223d47f_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5567/10000] (7.98GB) Downloading: BEAUX_p_TCGA_b109_SNP_2N_GenomeWideSNP_6_C12_772180.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5568/10000] (7.98GB) Downloading: BEAUX_p_TCGA_b109_SNP_2N_GenomeWideSNP_6_C02_772076.grch38.seg.v2.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5569/10000] (7.98GB) Downloading: TCGA-BRCA.47ba6d6f-734a-4e33-af3e-eef3783cc26b.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5570/10000] (7.98GB) Downloading: TCGA-E2-A10C-01A-02-TSB.4d05f801-0494-42ad-9365-9b59bf957f4a.svs (94.45 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5571/10000] (8.08GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_H02_734732.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5572/10000] (8.08GB) Downloading: 5db685e8-571e-4595-9527-b3a86bed9963.mirbase21.isoforms.quantification.txt (0.30 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5573/10000] (8.08GB) Downloading: TCGA-D8-A1JA-01Z-00-DX1.BD43F94A-D5A8-490E-AED4-5F3AB24080FA.svs (1576.49 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5574/10000] (9.62GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_H02_734732.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5575/10000] (9.62GB) Downloading: TCGA-A7-A0CH-01A-02-BS2.35a53501-d7ed-4476-bf3e-60ae9b6b9829.svs (197.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5576/10000] (9.81GB) Downloading: CUSKS_p_TCGAb47_SNP_1N_GenomeWideSNP_6_H06_628302.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5577/10000] (9.81GB) Downloading: 998e75ff-dff9-4c53-b8a1-222bfad7ca50.wxs.aliquot_ensemble_masked.maf.gz (0.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5578/10000] (9.81GB) Downloading: nationwidechildrens.org_clinical.TCGA-D8-A1JA.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5579/10000] (9.81GB) Downloading: TCGA-A7-A0CH-11A-03-TS3.241fdee0-1e8d-4187-a26d-5eabaa958d1c.svs (93.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5580/10000] (9.90GB) Downloading: TCGA-A7-A0CH-11A-02-BS2.77935660-1118-4fa2-8b79-3828c9ca4fc1.svs (104.23 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5581/10000] (10.00GB) Downloading: ea538070-5757-4691-9d6c-d8f05a6e6146.mirbase21.isoforms.quantification.txt (0.26 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5582/10000] (10.00GB) Downloading: nationwidechildrens.org_ssf.TCGA-D8-A1JA.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5583/10000] (10.00GB) Downloading: TCGA-BRCA.05cd681e-6864-4296-88d3-f3848bdaaf58.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5584/10000] (10.01GB) Downloading: 49e456c9-c47b-4663-bf6f-9f8f4e4e71a5.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5585/10000] (10.01GB) Downloading: 9803ac9c-d4a6-42ed-8e31-7a7b813030f8_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5586/10000] (10.02GB) Downloading: 08fffdac-0553-4ff6-be0f-6f8aa3f79484.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5587/10000] (10.02GB) Downloading: ae1d34ae-5046-45bb-8353-29b59fc831db_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5588/10000] (10.02GB) Downloading: TCGA-E9-A24A-01A-21-A17K-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5589/10000] (10.02GB) Downloading: nationwidechildrens.org_ssf.TCGA-B6-A0RG.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5590/10000] (10.02GB) Downloading: TCGA-BRCA.64c61d5d-6be8-48e4-a111-3eb9a72f9efc.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5591/10000] (10.02GB) Downloading: 2441c58b-f27e-46c7-aeb9-45d27226d8f9.methylation_array.sesame.level3betas.txt (12.35 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5592/10000] (10.03GB) Downloading: 2441c58b-f27e-46c7-aeb9-45d27226d8f9_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5593/10000] (10.04GB) Downloading: 4af95eed-bfde-42c1-8e5f-d2aefa7bc55b_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5594/10000] (10.04GB) Downloading: 9b82465b-2375-4ff8-83b1-983a9755e440.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5595/10000] (10.04GB) Downloading: TCGA-BH-A1EW-11B-41-A43P-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5596/10000] (10.04GB) Downloading: TCGA-BRCA.646a5d15-e48b-4183-b437-98280a5821c3.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5597/10000] (10.05GB) Downloading: 61348250-68d8-4cef-b6f9-68a68d35508f.rna_seq.augmented_star_gene_counts.tsv (4.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5598/10000] (10.05GB) Downloading: EXINE_p_TCGA_b142_SNP_N_GenomeWideSNP_6_B11_802316.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5599/10000] (10.05GB) Downloading: TCGA-B6-A0RG-01Z-00-DX1.C83D21A0-EC61-459C-9776-EA3D91469E72.svs (2056.68 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5600/10000] (12.06GB) Downloading: 9803ac9c-d4a6-42ed-8e31-7a7b813030f8_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5601/10000] (12.07GB) Downloading: BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_E04_697112.grch38.seg.v2.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5602/10000] (12.07GB) Downloading: nationwidechildrens.org_clinical.TCGA-E9-A24A.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5603/10000] (12.07GB) Downloading: 2393d723-dd70-4b7b-8ba9-a6cf4902c172.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5604/10000] (12.07GB) Downloading: TCGA-B6-A0RG.0429FA9A-AD19-424C-94ED-1A902119E559.PDF (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5605/10000] (12.07GB) Downloading: nationwidechildrens.org_ssf.TCGA-BH-A1EW.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5606/10000] (12.07GB) Downloading: 2441c58b-f27e-46c7-aeb9-45d27226d8f9_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5607/10000] (12.08GB) Downloading: TCGA-BH-A1EW-11B-01-TSA.0dd1e8b3-7435-4705-bb1b-b612a01a26b2.svs (59.56 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5608/10000] (12.13GB) Downloading: 9b82465b-2375-4ff8-83b1-983a9755e440.mirbase21.isoforms.quantification.txt (0.37 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5609/10000] (12.13GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-PL-A8LY.xml (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5610/10000] (12.13GB) Downloading: TCGA-BRCA.9a1bfc69-79f4-442d-b7f5-b451e22cf143.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5611/10000] (12.14GB) Downloading: nationwidechildrens.org_clinical.TCGA-PL-A8LY.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5612/10000] (12.14GB) Downloading: 163799b6-69de-48d8-87f6-59952ffbe9c0_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5613/10000] (12.14GB) Downloading: 5e4626c1-dcf9-4781-a2e7-f6afca7e2ee7.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5614/10000] (12.15GB) Downloading: GAMMA_p_TCGA_b103_104_SNP_N_GenomeWideSNP_6_D04_755936.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5615/10000] (12.15GB) Downloading: TCGA-BRCA.aff7ebf5-e7ff-4932-972f-758e23aedf4b.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5616/10000] (12.15GB) Downloading: 176658d5-f8eb-414b-87d7-444271766d75.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5617/10000] (12.15GB) Downloading: TCGA-BRCA.87d149dc-fcf5-4c2b-8c3e-f866ed274cee.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5618/10000] (12.15GB) Downloading: TCGA-AN-A04C-01A-01-BS1.4f8165fd-0791-4fa6-97ea-66b2b3eb0730.svs (97.59 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5619/10000] (12.25GB) Downloading: TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_E08_1513318.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5620/10000] (12.25GB) Downloading: KEBAB_p_TCGASNP_226_227_N_GenomeWideSNP_6_G06_1151630.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5621/10000] (12.25GB) Downloading: d681e327-7e74-4f6a-811f-e006470e568f.rna_seq.augmented_star_gene_counts.tsv (4.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5622/10000] (12.25GB) Downloading: TCGA-BRCA.5382306d-84ce-4839-acb5-ba11a8f8cea5.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5623/10000] (12.25GB) Downloading: TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_E09_1513264.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5624/10000] (12.25GB) Downloading: KEBAB_p_TCGASNP_226_227_N_GenomeWideSNP_6_G06_1151630.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5625/10000] (12.25GB) Downloading: TCGA-BRCA.aa8b87f4-9e6b-4da1-9942-1b2c86f3fcc0.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5626/10000] (12.25GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_D09_666894.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5627/10000] (12.25GB) Downloading: TCGA-A2-A0EX-01A-02-MSB.8a884510-c00e-442d-bf13-1eb36f4ee10b.svs (259.35 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5628/10000] (12.51GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AC-A3TM.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5629/10000] (12.51GB) Downloading: c52b7af4-adeb-456e-8312-cc67d1cc6112.wxs.aliquot_ensemble_masked.maf.gz (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5630/10000] (12.51GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_F12_667034.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5631/10000] (12.51GB) Downloading: nationwidechildrens.org_ssf.TCGA-AN-A04C.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5632/10000] (12.51GB) Downloading: HITCH_p_TCGASNP_b93_N_GenomeWideSNP_6_G07_741468.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5633/10000] (12.51GB) Downloading: nationwidechildrens.org_ssf.TCGA-BH-A18I.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5634/10000] (12.51GB) Downloading: bbc97d5f-6c7c-4803-af03-e67f637788e9.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5635/10000] (12.51GB) Downloading: TCGA-A7-A0CG-01A-01-TS1.7c898f34-39c1-4a61-bc74-e169bce13449.svs (324.59 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5636/10000] (12.82GB) Downloading: TCGA-BH-A18I-01Z-00-DX1.EE699DE3-EBF4-4AB4-8319-9911F027FA18.svs (1047.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5637/10000] (13.85GB) Downloading: 82d0130a-9bea-443b-bf46-32fe0a2ce84c.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5638/10000] (13.85GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_A09_667038.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5639/10000] (13.85GB) Downloading: 186be017-5225-4d7b-9c67-8aeb456ab92d.wgs.ASCAT.gene_level.copy_number_variation.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5640/10000] (13.85GB) Downloading: TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_D01_1513190.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5641/10000] (13.85GB) Downloading: nationwidechildrens.org_ssf.TCGA-A2-A0EX.xml (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5642/10000] (13.85GB) Downloading: TCGA-BH-A18I.01E8D241-C303-47FA-B484-B800D580B34C.PDF (0.14 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5643/10000] (13.85GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_F12_667034.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5644/10000] (13.85GB) Downloading: nationwidechildrens.org_ssf.TCGA-A7-A0CG.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5645/10000] (13.85GB) Downloading: 75d91076-9d8a-415e-9ee6-00b877e55874.rna_seq.augmented_star_gene_counts.tsv (4.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5646/10000] (13.86GB) Downloading: TCGA-BRCA.1d102fff-6466-491d-9727-9f059aad616f.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5647/10000] (13.86GB) Downloading: TCGA-BRCA.aa8b87f4-9e6b-4da1-9942-1b2c86f3fcc0.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5648/10000] (13.86GB) Downloading: TCGA-A7-A0CE-01Z-00-DX1.E67322FB-ED25-4B85-B3B0-2B8BD277BB4A.svs (1161.60 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5649/10000] (15.00GB) Downloading: affeafc3-20c4-47df-8d28-063e04a07437.wxs.aliquot_ensemble_masked.maf.gz (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5650/10000] (15.00GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-4H-AAAK.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5651/10000] (15.00GB) Downloading: bbc97d5f-6c7c-4803-af03-e67f637788e9.mirbase21.isoforms.quantification.txt (0.23 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5652/10000] (15.00GB) Downloading: 03e69dc1-ccd9-41a8-96e3-b2f9dc4d64cd_noid_Red.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5653/10000] (15.00GB) Downloading: 03e69dc1-ccd9-41a8-96e3-b2f9dc4d64cd_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5654/10000] (15.00GB) Downloading: TCGA-BRCA.62b607cb-63e1-4619-993e-94a5d696b1a7.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[5655/10000] (15.00GB) Downloading: 7f9a85ed-19d4-49ba-b508-24cef19215c5_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "\n",
+      "!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!\n",
+      "CẢNH BÁO: Dung lượng đã đạt giới hạn (15.01 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": "09fcd106dc814dfcb0fb7f5087c8de2c",
+       "version_major": 2,
+       "version_minor": 0
+      },
+      "text/plain": [
+       "Processing Files (0 / 0): |          |  0.00B /  0.00B            "
+      ]
+     },
+     "metadata": {},
+     "output_type": "display_data"
+    },
+    {
+     "data": {
+      "application/vnd.jupyter.widget-view+json": {
+       "model_id": "f0f0027bf67d4897ad3880fee8e28dfe",
+       "version_major": 2,
+       "version_minor": 0
+      },
+      "text/plain": [
+       "New Data Upload: |          |  0.00B /  0.00B            "
+      ]
+     },
+     "metadata": {},
+     "output_type": "display_data"
     }
    ],
    "source": [

data/gdc_data_organized/66072c06-f251-4f0b-b6ae-12b407c52cc6/176658d5-f8eb-414b-87d7-444271766d75.mirbase21.mirnas.quantification.txt

@@ -0,0 +1,1882 @@
+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	6131	5454.660305	N
+hsa-let-7a-2	6047	5379.926743	N
+hsa-let-7a-3	6009	5346.118704	N
+hsa-let-7b	16129	14349.733495	N
+hsa-let-7c	2846	2532.044239	N
+hsa-let-7d	978	870.112180	N
+hsa-let-7e	447	397.689309	N
+hsa-let-7f-1	2287	2034.710181	N
+hsa-let-7f-2	2282	2030.261754	N
+hsa-let-7g	738	656.587719	N
+hsa-let-7i	343	305.162043	N
+hsa-mir-1-1	2	1.779371	N
+hsa-mir-1-2	3	2.669056	N
+hsa-mir-100	1508	1341.645366	Y
+hsa-mir-101-1	3625	3225.109053	N
+hsa-mir-101-2	3653	3250.020240	N
+hsa-mir-103a-1	11722	10428.890571	Y
+hsa-mir-103a-2	11825	10520.528153	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	33	29.359613	N
+hsa-mir-105-2	31	27.580243	N
+hsa-mir-106a	80	71.174820	Y
+hsa-mir-106b	1014	902.140850	N
+hsa-mir-107	81	72.064506	Y
+hsa-mir-10a	9460	8416.422522	N
+hsa-mir-10b	32791	29173.669231	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	0	0.000000	N
+hsa-mir-1180	7	6.227797	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	0	0.000000	N
+hsa-mir-1227	0	0.000000	N
+hsa-mir-1228	2	1.779371	N
+hsa-mir-1229	0	0.000000	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	0	0.000000	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	0	0.000000	N
+hsa-mir-1245b	0	0.000000	N
+hsa-mir-1246	1	0.889685	N
+hsa-mir-1247	110	97.865378	N
+hsa-mir-1248	9	8.007167	N
+hsa-mir-1249	6	5.338112	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	1	0.889685	N
+hsa-mir-1255a	2	1.779371	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	1	0.889685	N
+hsa-mir-125a	272	241.994390	N
+hsa-mir-125b-1	186	165.481458	N
+hsa-mir-125b-2	213	189.502960	N
+hsa-mir-126	8283	7369.262976	N
+hsa-mir-1260a	0	0.000000	N
+hsa-mir-1260b	0	0.000000	N
+hsa-mir-1261	0	0.000000	N
+hsa-mir-1262	0	0.000000	N
+hsa-mir-1263	0	0.000000	N
+hsa-mir-1264	0	0.000000	N
+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	39	34.697725	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	94	83.630414	N
+hsa-mir-1269b	27	24.021502	N
+hsa-mir-127	544	483.988779	N
+hsa-mir-1270	2	1.779371	N
+hsa-mir-1271	2	1.779371	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
+hsa-mir-1273d	0	0.000000	N
+hsa-mir-1273e	0	0.000000	N
+hsa-mir-1273f	0	0.000000	N
+hsa-mir-1273g	0	0.000000	N
+hsa-mir-1273h	0	0.000000	N
+hsa-mir-1275	0	0.000000	N
+hsa-mir-1276	1	0.889685	N
+hsa-mir-1277	5	4.448426	N
+hsa-mir-1278	0	0.000000	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	176	156.584605	N
+hsa-mir-128-2	112	99.644749	N
+hsa-mir-1281	0	0.000000	N
+hsa-mir-1282	0	0.000000	N
+hsa-mir-1283-1	0	0.000000	N
+hsa-mir-1283-2	0	0.000000	N
+hsa-mir-1284	1	0.889685	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	24	21.352446	N
+hsa-mir-1288	1	0.889685	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
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+hsa-mir-1301	33	29.359613	N
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+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	9	8.007167	N
+hsa-mir-1307	1758	1564.066680	N
+hsa-mir-130a	36	32.028669	N
+hsa-mir-130b	50	44.484263	N
+hsa-mir-132	59	52.491430	N
+hsa-mir-1321	0	0.000000	N
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+hsa-mir-134	573	509.789652	N
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+hsa-mir-138-2	0	0.000000	N
+hsa-mir-139	51	45.373948	N
+hsa-mir-140	511	454.629166	N
+hsa-mir-141	4435	3945.754111	N
+hsa-mir-142	12793	11381.743481	N
+hsa-mir-143	30775	27380.063755	N
+hsa-mir-144	60	53.381115	N
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+hsa-mir-148a	75431	67109.848549	N
+hsa-mir-148b	342	304.272358	N
+hsa-mir-149	165	146.798067	N
+hsa-mir-150	709	630.786847	N
+hsa-mir-151a	2621	2331.865056	N
+hsa-mir-151b	4	3.558741	N
+hsa-mir-152	127	112.990028	N
+hsa-mir-153-1	0	0.000000	N
+hsa-mir-153-2	20	17.793705	N
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+hsa-mir-155	589	524.024616	N
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+hsa-mir-15a	291	258.898410	N
+hsa-mir-15b	322	286.478652	N
+hsa-mir-16-1	652	580.074787	N
+hsa-mir-16-2	641	570.288249	N
+hsa-mir-17	1769	1573.853218	Y
+hsa-mir-181a-1	1619	1440.400430	N
+hsa-mir-181a-2	3163	2814.074465	N
+hsa-mir-181b-1	442	393.240883	N
+hsa-mir-181b-2	424	377.226549	N
+hsa-mir-181c	188	167.260828	N
+hsa-mir-181d	69	61.388283	N
+hsa-mir-182	109244	97192.776112	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	47845	42566.991076	N
+hsa-mir-184	16	14.234964	N
+hsa-mir-185	98	87.189155	N
+hsa-mir-186	702	624.559050	N
+hsa-mir-187	9	8.007167	N
+hsa-mir-188	7	6.227797	N
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+hsa-mir-18b	2	1.779371	N
+hsa-mir-1908	0	0.000000	N
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+hsa-mir-190a	3	2.669056	N
+hsa-mir-190b	5	4.448426	N
+hsa-mir-191	2357	2096.988149	N
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+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	2771	2465.317845	Y
+hsa-mir-193a	596	530.252413	N
+hsa-mir-193b	547	486.657835	N
+hsa-mir-194-1	291	258.898410	N
+hsa-mir-194-2	359	319.397007	N
+hsa-mir-195	25	22.242131	N
+hsa-mir-196a-1	1391	1237.552191	N
+hsa-mir-196a-2	1572	1398.585223	N
+hsa-mir-196b	207	184.164848	N
+hsa-mir-197	670	596.089122	N
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+hsa-mir-1976	7	6.227797	N
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+hsa-mir-199a-1	1057	940.397316	Y
+hsa-mir-199a-2	2022	1798.943588	Y
+hsa-mir-199b	2730	2428.840749	Y
+hsa-mir-19a	99	88.078840	N
+hsa-mir-19b-1	163	145.018697	N
+hsa-mir-19b-2	127	112.990028	N
+hsa-mir-200a	3410	3033.826723	N
+hsa-mir-200b	2397	2132.575559	N
+hsa-mir-200c	32943	29308.901390	N
+hsa-mir-202	1	0.889685	N
+hsa-mir-203a	62344	55466.537603	N
+hsa-mir-203b	1129	1004.454654	N
+hsa-mir-204	0	0.000000	N
+hsa-mir-205	4934	4389.707053	N
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+hsa-mir-208b	0	0.000000	N
+hsa-mir-20a	678	603.206604	N
+hsa-mir-20b	88	78.292303	N
+hsa-mir-21	218795	194658.685597	N
+hsa-mir-210	975	867.443125	N
+hsa-mir-211	0	0.000000	N
+hsa-mir-2110	3	2.669056	N
+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	1	0.889685	N
+hsa-mir-2115	15	13.345279	N
+hsa-mir-2116	2	1.779371	N
+hsa-mir-2117	2	1.779371	N
+hsa-mir-212	0	0.000000	N
+hsa-mir-214	14	12.455594	N
+hsa-mir-215	21	18.683390	Y
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+hsa-mir-217	8	7.117482	N
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+hsa-mir-218-2	20	17.793705	N
+hsa-mir-219a-1	8	7.117482	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	3	2.669056	N
+hsa-mir-22	60322	53667.594015	N
+hsa-mir-221	73	64.947024	N
+hsa-mir-222	29	25.800872	N
+hsa-mir-223	68	60.498597	N
+hsa-mir-224	890	791.819878	N
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+hsa-mir-23a	3425	3047.172002	Y
+hsa-mir-23b	556	494.665002	Y
+hsa-mir-23c	1	0.889685	N
+hsa-mir-24-1	627	557.832656	N
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+hsa-mir-26a-2	600	533.811154	N
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+hsa-mir-27b	346	307.831099	Y
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+hsa-mir-30c-2	430	382.564660	Y
+hsa-mir-30d	66452	59121.364635	N
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+hsa-mir-3652	1	0.889685	N
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+hsa-mir-3675	0	0.000000	N
+hsa-mir-3677	6	5.338112	N
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+hsa-mir-424	208	185.054533	N
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+hsa-mir-4728	52	46.263633	N
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+hsa-mir-484	167	148.577438	N
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+hsa-mir-500b	11	9.786538	Y
+hsa-mir-501	78	69.395450	N
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+hsa-mir-5047	0	0.000000	N
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+hsa-mir-509-2	1	0.889685	N
+hsa-mir-509-3	2	1.779371	N
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+hsa-mir-532	1231	1095.202550	N
+hsa-mir-539	34	30.249299	N
+hsa-mir-541	3	2.669056	N
+hsa-mir-542	166	147.687753	N
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+hsa-mir-548s	1	0.889685	N
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+hsa-mir-550a-2	2	1.779371	N
+hsa-mir-550a-3	1	0.889685	N
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+hsa-mir-5587	0	0.000000	N
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+hsa-mir-583	0	0.000000	N
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+hsa-mir-6086	0	0.000000	N
+hsa-mir-6087	1	0.889685	N
+hsa-mir-6088	0	0.000000	N
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+hsa-mir-6089-2	0	0.000000	N
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+hsa-mir-6090	0	0.000000	N
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+hsa-mir-6128	0	0.000000	N
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+hsa-mir-625	290	258.008724	N
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+hsa-mir-627	7	6.227797	N
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+hsa-mir-642a	9	8.007167	N
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+hsa-mir-651	6	5.338112	N
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+hsa-mir-660	37	32.918354	N
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+hsa-mir-6762	0	0.000000	N
+hsa-mir-6763	1	0.889685	N
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+hsa-mir-7-1	178	158.363976	N
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+hsa-mir-7706	2	1.779371	N
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+hsa-mir-8485	0	0.000000	N
+hsa-mir-873	0	0.000000	N
+hsa-mir-874	11	9.786538	N
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+hsa-mir-885	0	0.000000	N
+hsa-mir-887	5	4.448426	N
+hsa-mir-888	0	0.000000	N
+hsa-mir-889	16	14.234964	N
+hsa-mir-890	0	0.000000	N
+hsa-mir-891a	3	2.669056	N
+hsa-mir-891b	0	0.000000	N
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+hsa-mir-892c	0	0.000000	N
+hsa-mir-9-1	229	203.737924	N
+hsa-mir-9-2	209	185.944219	N
+hsa-mir-9-3	207	184.164848	N
+hsa-mir-920	0	0.000000	N
+hsa-mir-921	0	0.000000	N
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+hsa-mir-924	0	0.000000	N
+hsa-mir-92a-1	9680	8612.153279	N
+hsa-mir-92a-2	8702	7742.041098	N
+hsa-mir-92b	114	101.424119	N
+hsa-mir-93	11179	9945.791477	N
+hsa-mir-933	0	0.000000	N
+hsa-mir-934	6	5.338112	N
+hsa-mir-935	0	0.000000	N
+hsa-mir-936	0	0.000000	N
+hsa-mir-937	1	0.889685	N
+hsa-mir-938	0	0.000000	N
+hsa-mir-939	2	1.779371	N
+hsa-mir-940	3	2.669056	N
+hsa-mir-941-1	0	0.000000	N
+hsa-mir-941-2	0	0.000000	N
+hsa-mir-941-3	0	0.000000	N
+hsa-mir-941-4	0	0.000000	N
+hsa-mir-941-5	0	0.000000	N
+hsa-mir-942	11	9.786538	N
+hsa-mir-943	0	0.000000	N
+hsa-mir-944	1	0.889685	N
+hsa-mir-95	5	4.448426	N
+hsa-mir-9500	0	0.000000	N
+hsa-mir-96	130	115.659083	N
+hsa-mir-98	99	88.078840	N
+hsa-mir-99a	570	507.120596	Y
+hsa-mir-99b	14467	12871.076599	N

data/gdc_data_organized/66072c06-f251-4f0b-b6ae-12b407c52cc6/BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_D09_666894.nocnv_grch38.seg.v2.txt

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+d0d846fe-6e0d-4589-a999-136dc5728187	1	226540203	226542735	2	-2.0037
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+d0d846fe-6e0d-4589-a999-136dc5728187	X	3236359	155677414	63990	0.0141

data/gdc_data_organized/66072c06-f251-4f0b-b6ae-12b407c52cc6/TCGA-AN-A04C-01A-01-BS1.4f8165fd-0791-4fa6-97ea-66b2b3eb0730.svs

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data/gdc_data_organized/66072c06-f251-4f0b-b6ae-12b407c52cc6/nationwidechildrens.org_ssf.TCGA-AN-A04C.xml

@@ -0,0 +1,93 @@
+<?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">D8CEA180-3FC1-4D22-A1F1-F8B8BEE5B7A9</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">56.91.0</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-AN-A04C</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">66072c06-f251-4f0b-b6ae-12b407c52cc6</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">AN</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A04C</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">4a7e95e4-58b5-4e96-a029-98f294b3cd54</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="Not Available" restricted="false" source_system_identifier="156969"/>
+                <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="156970" 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="156971">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="156972">OCT BLOCK</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="156973">270</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="156976">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="156974">80</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="156975">5</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">654</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="157061">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="157062">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="157064">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="157063">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="156977">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="156979">YES</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="157066">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="157066">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="157067">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">0</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="740625"/>
+                <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="156962">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="156965">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="156965">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="156965"/>
+                    </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">7de2f81f-5768-4656-b467-7967519986b1</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="Not Available" restricted="false" source_system_identifier="157010"/>
+                <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="157011"/>
+                <ssf:days_to_normal_sample_procurement precision="day" xsd_ver="2.3" tier="1" cde="3288496" owner="TSS" procurement_status="Not Available" preferred_name="normal_control_procurement_days_to" display_order="55" cde_ver="1.000"/>
+                <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="157012"/>
+                <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="157003"/>
+                <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="157002"/>
+                <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="157001"/>
+                <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="157004"/>
+                <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="Not Available" restricted="false" source_system_identifier="157005"/>
+                        <ssf:other_anatomic_site_normal_tissue preferred_name="normal_control_site_other" display_order="58" cde="3288189" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="157006"/>
+                    </ssf:normal_control_location>
+                </ssf:normal_control_locations>
+            </ssf:normal_control>
+        </ssf:normal_controls>
+    </ssf:patient>
+</ssf:tcga_bcr>

data/gdc_data_organized/6623fc5e-00be-4476-967a-cbd55f676ea6/TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_D01_1513190.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,173 @@
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data/gdc_data_organized/6623fc5e-00be-4476-967a-cbd55f676ea6/nationwidechildrens.org_biospecimen.TCGA-4H-AAAK.xml

@@ -0,0 +1,426 @@
+<?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">A60A9078-7588-4302-8CAE-C6755E915B3D</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">379.36.0</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">6</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">11</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2018</admin:year_of_dcc_upload>
+        <admin:program xsd_ver="2.7">TCGA</admin:program>
+        <admin:dbgap_registration_code xsd_ver="2.7">000178</admin:dbgap_registration_code>
+    </admin:admin>
+    <bio:patient>
+        <admin:additional_studies/>
+        <shared:bcr_patient_barcode cde="2003301" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6623FC5E-00BE-4476-967A-CBD55F676EA6</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">4H</shared:tissue_source_site>
+        <shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">AAAK</shared:patient_id>
+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Completed" owner="">FEMALE</shared:gender>
+        <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:specimen_fraction_ordinal cde="" xsd_ver="2.7" procurement_status="Not Available" owner=""/>
+                <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="">770</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="">true</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="">35</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-4H-AAAK-01A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">685B5DF4-0620-40E2-AA09-0DD736BB5E2B</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="Not Available" owner=""/>
+                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A43F</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="">24</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">6</bio:shipment_portion_month_of_shipment>
+                        <bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2014</bio:shipment_portion_year_of_shipment>
+                        <bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-21-A43F-20</bio:shipment_portion_bcr_aliquot_barcode>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">C1C10723-C328-4CAB-9959-E98025E4CD71</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="">12</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</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="">2014</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-4H-AAAK-01A-12</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">CBF6BE46-8576-444F-9D0E-44C5259AB071</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="">2</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="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-4H-AAAK-01A-12D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">CFBF6AC4-3101-4D36-87D8-3C3931C3E507</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="">A41E</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12D-A41E-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1D102FFF-6466-491D-9727-9F059AAD616F</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="">1.14</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.70</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="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0174189781</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="">A41F</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12D-A41F-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">60F27E30-A8E0-49A7-95AA-0FFFEE44F5FD</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="">3.20</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</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="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0174191459</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="">A41Q</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12D-A41Q-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D8010B5C-924A-4704-8E95-B7CEEC56C21A</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="">E</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="">0174186531</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="">A702</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2018</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12D-A702-36</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1F43341D-C5EF-4EDD-8BF0-F07DC067D5C2</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.02</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">100.00</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="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0175150319</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="">PicoGreen</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</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="">1.76</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-4H-AAAK-01A-12R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A8FBA374-770D-4C87-8AFA-B0D99AC2E7C4</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="">A41B</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12R-A41B-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2EA9E472-A408-4AE0-975D-50A566F22B2A</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="">E</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="">0174191569</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="">A41G</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-12R-A41G-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">17FCBCDD-D503-43ED-9002-0EB4F2A1BB59</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="">1</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0174189839</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="">1.81</bio:ratio_28s_18s>
+                                    <bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">9.20</bio:rinvalue>
+                                </bio:rna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </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="">70</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="">10</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="">20</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="">5</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-4H-AAAK-01A-01-TS1</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">E2C90DAA-EEAF-4F0B-9495-B100AA4DC26C</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-01-TS1.E2C90DAA-EEAF-4F0B-9495-B100AA4DC26C.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:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">31</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">13</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2017</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-01A-31-A617-42</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">FB055B59-7512-40E4-8547-39798A4C9B8C</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <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="3288495" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">8894688F-7167-48A1-BB1B-FC219B7675C2</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-4H-AAAK.8894688F-7167-48A1-BB1B-FC219B7675C2.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="">ABF1B042-1970-4E28-8671-43AAD393D2F9</bio:ffpe_slide_uuid>
+                </bio:diagnostic_slides>
+            </bio:sample>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:specimen_fraction_ordinal cde="" xsd_ver="2.7" procurement_status="Not Available" owner=""/>
+                <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="">35</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-4H-AAAK-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3519C7CD-B939-47CB-8126-8D999AFF8F86</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="Not Available" owner=""/>
+                        <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="">04</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</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-4H-AAAK-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A1DA1D00-E713-49D7-8EF7-796A776F8498</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="">0.15</bio:concentration>
+                                <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-4H-AAAK-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9E594A59-46B5-4DEC-9029-676A0C7A6ED3</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="">A41E</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-10A-01D-A41E-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5D4C9859-6B30-4E7E-9D82-F92F27AE9BBA</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="">1.01</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.70</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="">6</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0174189756</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="">A41F</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="">28</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2014</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-10A-01D-A41F-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">159E1800-87FF-46D3-A2B2-A7D7075205CC</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.07</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.80</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</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="">6</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0174191427</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="">A702</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2018</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-4H-AAAK-10A-01D-A702-36</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4EB558C2-02AA-4880-BE60-73C01813197E</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.02</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">100.00</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="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0175150318</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="">PicoGreen</bio:spectrophotometer_method>
+                            </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="3288495" 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/67c73260-a242-4bba-87c5-d2302556dff7/KEBAB_p_TCGASNP_226_227_N_GenomeWideSNP_6_G06_1151630.grch38.seg.v2.txt

@@ -0,0 +1,367 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	62920	259926	16	0.0821
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	266187	599171	4	-1.0484
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	668210	72302815	42760	0.0028
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	72303233	72345465	46	1.0831
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	72346221	95333009	14955	0
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	95334434	95334909	2	-1.2585
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	95334921	103620877	5079	0.0046
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	103621165	103764621	9	-0.6249
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+8245bd9c-d682-4295-84d4-b0ec979d2293	13	31965910	37497899	3902	-0.0017
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+8245bd9c-d682-4295-84d4-b0ec979d2293	13	37514193	38478674	701	-0.0063
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	38483435	38483919	2	-1.9974
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	38490920	70230264	19808	0.0042
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	70234708	70243704	5	-1.2073
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	70244381	71902850	1036	0.0083
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	71903417	71906418	4	-2.9665
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	71906467	97875020	16940	0.0024
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	97877870	97879211	6	-1.0075
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	97881576	105395212	5753	0.0013
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105395607	105408089	10	-0.591
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105408843	105659324	213	0.0256
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105663858	105664629	5	-0.7066
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105667023	105795073	97	0.0253
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105798115	105812808	21	-1.039
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105815495	114342922	6038	0.0058
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	18239283	19203845	41	-0.0269
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	19215688	19650668	19	-0.6747
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	19667065	19899249	75	0.2436
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	19901323	23975620	2742	0.0003
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	23975769	24019187	24	-0.966
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	24019200	106418444	52258	0.0005
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	106423925	106462169	47	-0.5702
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+8245bd9c-d682-4295-84d4-b0ec979d2293	15	19811075	20305901	72	-0.041
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	20317086	22299523	134	0.2569
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	22385639	30215235	4631	-0.0001
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	30230885	30269364	7	-1.2186
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	30281107	35847205	3526	0.0043
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	35847556	35869277	18	-0.4238
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	35871692	43604064	4792	0
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	43637153	43703690	18	-0.9857
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	43721953	76599286	20714	0.0013
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	76599400	76603434	19	0.6985
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	76609838	83871965	4415	-0.0002
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	83871986	83874798	6	-0.9593
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	83878525	101928837	13193	0.0016
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	10777	16268505	11751	0.0057
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	16269368	16541758	16	-0.8524
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	16550385	18088127	994	0.0052
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	18104860	18153433	6	-1.4877
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	18162067	55764310	14174	-0.0049
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	55764850	55764867	2	3.2793
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	55770436	90096867	24931	0.0045
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	150733	3595117	1853	0.0019
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	3602274	3654159	34	-1.0931
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	3665125	41266762	18932	-0.001
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	41266774	41274279	23	-0.8753
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	41276472	46085732	2499	0.0067
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	46088437	46446360	128	0.3007
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	46569894	57610128	7005	-0.0024
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	57610972	57611632	2	1.6453
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	57614632	83091923	14563	0.0038
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	48133	14661644	10185	0.0113
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	14663972	14672480	2	1.4175
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	14691686	15149069	171	-0.0148
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	15152213	15180160	8	-0.6155
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	15182455	26787448	3516	0.0137
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	26787465	26787479	2	-1.317
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	26787566	42476604	10135	0.0085
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	42476636	42477436	20	-0.7248
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	42477469	64024598	14872	0.0114
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+8245bd9c-d682-4295-84d4-b0ec979d2293	18	64037047	66095064	1442	0.034
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	66099904	66100686	3	-2.5687
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	66108359	80257174	10372	0.018
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	90910	12581187	5042	0.0088
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+8245bd9c-d682-4295-84d4-b0ec979d2293	19	24304880	42184857	9025	0.0049
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+8245bd9c-d682-4295-84d4-b0ec979d2293	19	42196376	42786621	241	-0.0179
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	42790238	43038679	114	-0.9208
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	43044862	53016285	5182	-0.005
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	53017128	53048976	20	0.4435
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	53050987	54215136	772	-0.0315
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54226329	54237443	16	-0.9615
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54249482	54740939	270	0.0234
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54772391	54786431	3	-2.0576
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54787128	54815158	16	0.0252
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54819199	54856908	19	-0.3649
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	54862363	55771003	438	0.021
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	55771169	55771701	3	-2.2469
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	55774927	58586487	1839	0.0036
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	80664	726179	483	0.0053
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	726954	727068	2	-3.0659
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	731131	1586808	722	0.0066
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	1587007	1613247	38	-0.7742
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	1617300	25774214	18610	0.0016
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+8245bd9c-d682-4295-84d4-b0ec979d2293	20	26092944	26255650	78	0.9082
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+8245bd9c-d682-4295-84d4-b0ec979d2293	20	34847358	64324800	20563	0.0035
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	10354168	13251464	125	0.0068
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	13270143	14039762	207	-0.1397
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	14040078	21912828	5697	0.0027
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+8245bd9c-d682-4295-84d4-b0ec979d2293	21	21916048	26908194	3815	-0.0048
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	26910341	26910533	3	-1.6633
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	26911285	46677045	13999	0.0033
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	15294547	18760941	1137	-0.0184
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	18783014	18918093	7	-0.9792
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	18947964	33777419	10500	0.0028
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	33778960	33778975	2	-2.2301
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	33778986	33785487	4	-0.776
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	33785779	37346951	2773	0.0139
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	37352689	37353906	4	-0.7907
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	37354627	38894915	766	0.0122
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	38899250	38900899	3	-1.0398
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	38903109	49159956	7127	0.0039
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	49161325	50249919	720	0.0714
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	50252407	50796027	228	-0.026
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	251810	145934753	77769	0.0013
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	145935507	145940682	2	1.6197
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	145941553	155554665	5752	0.0029
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+8245bd9c-d682-4295-84d4-b0ec979d2293	X	155559990	155952689	91	-0.0179
+8245bd9c-d682-4295-84d4-b0ec979d2293	Y	2782397	3137227	151	-3.128
+8245bd9c-d682-4295-84d4-b0ec979d2293	Y	3138099	6076562	568	-2.6662
+8245bd9c-d682-4295-84d4-b0ec979d2293	Y	6080059	56872112	5920	-3.2324

data/gdc_data_organized/67c73260-a242-4bba-87c5-d2302556dff7/KEBAB_p_TCGASNP_226_227_N_GenomeWideSNP_6_G06_1151630.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,63 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	3301765	166033419	77793	0.0023
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	166033442	166033458	2	-1.5109
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	166033629	179640923	8687	-0.0028
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	179652797	179652946	2	-1.8087
+8245bd9c-d682-4295-84d4-b0ec979d2293	1	179654109	247650984	43297	0.0027
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	480597	29052746	17622	0.0042
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	29054396	29209239	143	-1.0259
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	29210116	80133486	28986	0.0019
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	80137060	80186396	50	-1.1795
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	80188031	230309705	78850	0.0009
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	230311348	230400636	49	0.5417
+8245bd9c-d682-4295-84d4-b0ec979d2293	2	230401563	241537572	6534	0.007
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	2170634	98482014	53576	-0.0011
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	98493107	98499845	8	-0.8697
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	98502197	130416162	18196	0
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	130416226	130416240	2	-1.2561
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	130416596	131725032	741	0.0198
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	131725054	131731846	5	-1.0179
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	131732043	186379127	28472	-0.0025
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	186381112	186382848	2	-1.7478
+8245bd9c-d682-4295-84d4-b0ec979d2293	3	186383996	197812401	6200	0.0012
+8245bd9c-d682-4295-84d4-b0ec979d2293	4	1059384	187842528	103516	-0.0009
+8245bd9c-d682-4295-84d4-b0ec979d2293	5	914118	4671270	2432	0.0049
+8245bd9c-d682-4295-84d4-b0ec979d2293	5	4671361	4671485	2	-2.8034
+8245bd9c-d682-4295-84d4-b0ec979d2293	5	4672142	180934240	98703	-0.001
+8245bd9c-d682-4295-84d4-b0ec979d2293	6	1011760	170596889	97176	0.0031
+8245bd9c-d682-4295-84d4-b0ec979d2293	7	664936	50284398	29285	-0.0027
+8245bd9c-d682-4295-84d4-b0ec979d2293	7	50284680	50286099	2	-1.4897
+8245bd9c-d682-4295-84d4-b0ec979d2293	7	50286121	149443079	48050	-0.0036
+8245bd9c-d682-4295-84d4-b0ec979d2293	7	149445433	149445865	3	-1.2455
+8245bd9c-d682-4295-84d4-b0ec979d2293	7	149448048	158592540	4622	0.002
+8245bd9c-d682-4295-84d4-b0ec979d2293	8	667625	144182542	82237	0.002
+8245bd9c-d682-4295-84d4-b0ec979d2293	9	789794	138044505	68492	0.0041
+8245bd9c-d682-4295-84d4-b0ec979d2293	10	366509	133411599	81311	-0.0018
+8245bd9c-d682-4295-84d4-b0ec979d2293	11	456012	69772815	36718	0.004
+8245bd9c-d682-4295-84d4-b0ec979d2293	11	69778046	69778408	2	-1.4108
+8245bd9c-d682-4295-84d4-b0ec979d2293	11	69779237	134272740	40868	0.0014
+8245bd9c-d682-4295-84d4-b0ec979d2293	12	780472	132605822	74353	-0.0011
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	18874255	105795073	51508	0.0003
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105798115	105812808	21	-1.039
+8245bd9c-d682-4295-84d4-b0ec979d2293	13	105815495	114226675	5476	0.0033
+8245bd9c-d682-4295-84d4-b0ec979d2293	14	20033191	105533894	49796	-0.0004
+8245bd9c-d682-4295-84d4-b0ec979d2293	15	23437561	101344124	44795	0.001
+8245bd9c-d682-4295-84d4-b0ec979d2293	16	603333	89317317	41228	0.0022
+8245bd9c-d682-4295-84d4-b0ec979d2293	17	1074619	82959812	37294	0.0003
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	326691	26787448	11647	0.0101
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	26787465	26787479	2	-1.317
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	26787566	64024598	23680	0.0095
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	64027831	64031057	3	-1.2771
+8245bd9c-d682-4295-84d4-b0ec979d2293	18	64037047	79349796	7635	0.014
+8245bd9c-d682-4295-84d4-b0ec979d2293	19	283868	58370362	24153	0.0045
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	472817	25774214	16849	0.0025
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	25847699	26091946	63	0.5301
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	26092944	26217295	59	0.9425
+8245bd9c-d682-4295-84d4-b0ec979d2293	20	31247668	63588502	20599	0.0055
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	13974127	21912828	5180	0.0003
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	21914569	21915580	7	-1.0399
+8245bd9c-d682-4295-84d4-b0ec979d2293	21	21916048	46262057	15410	0.0015
+8245bd9c-d682-4295-84d4-b0ec979d2293	22	16934932	48940621	17091	0.0079
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	3236359	145934753	59834	0.0006
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	145935507	145940682	2	1.6197
+8245bd9c-d682-4295-84d4-b0ec979d2293	X	145941553	155677414	4127	0.0066

data/gdc_data_organized/67c73260-a242-4bba-87c5-d2302556dff7/nationwidechildrens.org_biospecimen.TCGA-AC-A3TM.xml

@@ -0,0 +1,461 @@
+<?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">83291D96-5624-4C8D-84CF-5EB3E4192A2C</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">227.61.0</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-AC-A3TM</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">67C73260-A242-4BBA-87C5-D2302556DFF7</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">AC</shared:tissue_source_site>
+        <shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A3TM</shared:patient_id>
+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Completed" owner="">FEMALE</shared:gender>
+        <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="">160</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-AC-A3TM-01A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4EE0389F-33EC-4A69-BC02-1C458D812CB2</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="">A24A</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="">14</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:shipment_portion_month_of_shipment>
+                        <bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2012</bio:shipment_portion_year_of_shipment>
+                        <bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-21-A24A-20</bio:shipment_portion_bcr_aliquot_barcode>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">C53769A6-B6AF-4346-9A88-FFA6FFC19BFE</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="">13</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="">2012</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-AC-A3TM-01A-11</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">63C4EFF3-6AB2-4FC2-BF51-8461B8EF566B</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="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-AC-A3TM-01A-11D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F9020C5A-622E-40B6-9359-55BA013A18E6</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="">A227</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="">30</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11D-A227-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">AF766E9D-ADE5-4AED-BF45-52F1804D0850</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="">1.14</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A</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="">0118967134</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="">A228</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="">30</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11D-A228-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">E0B7762D-2E9B-4101-B3B8-475D663EBDE0</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="">3.20</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A</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="">0118966558</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="">A22B</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="">30</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11D-A22B-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4597ED3F-3425-4A5A-AEB1-F1CDE9001453</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="">A</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="">0118956928</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="">PicoGreen</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="">0.16</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.86</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-AC-A3TM-01A-11R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">BF6F5E11-BCE6-4931-BFAE-C5B486F74A20</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="">A22I</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="">30</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11R-A22I-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">AC11B9E7-D680-4C2A-93E9-48C464C89D98</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="">3.20</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="">G</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="">0118956118</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="">A22K</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="">30</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11R-A22K-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">902592E6-C7C5-46B8-B70B-5520DF79A8A3</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="">G</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="">0118955602</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="">7.30</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-AC-A3TM-01A-11W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A07BE711-5FDC-4DE1-B27C-BD0957DD6A6A</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="">A234</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="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2012</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-11W-A234-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0872C341-6E5A-47B4-AE18-355B941EE957</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="">A</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="">0132270910</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="">65</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">33</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="">2</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-AC-A3TM-01A-01-TSA</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F95FDB50-245E-4B62-B328-009B57AA8750</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AC-A3TM-01A-01-TSA.F95FDB50-245E-4B62-B328-009B57AA8750.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="">87DB9AD3-7640-4A78-B401-D5562D03BA76</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AC-A3TM.87DB9AD3-7640-4A78-B401-D5562D03BA76.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="">4421EE37-A2CC-4638-AC44-9C26CB09FDC1</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="">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="">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-AC-A3TM-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A9D3E814-BB73-4582-BA7A-0E31D370B743</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="">17</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="">2012</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-AC-A3TM-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">84FCEF10-485A-469F-B1F9-6DA6058F6E72</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="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-AC-A3TM-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4385EA79-D4E6-4262-9EA4-46040C68864E</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="">A229</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="">30</bio:day_of_shipment>
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+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-10A-01D-A22A-09</bio:bcr_aliquot_barcode>
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+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
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+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
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+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">PicoGreen</bio:spectrophotometer_method>
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+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
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+                                <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-AC-A3TM-10A-01W</bio:bcr_analyte_barcode>
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+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AC-A3TM-10A-01W-A235-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F31C6BB1-8576-42F7-99B0-2386078502D4</bio:bcr_aliquot_uuid>
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+                                        <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>
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data/gdc_data_organized/67eef990-5ff4-45d1-843d-d22d7848f130/bbc97d5f-6c7c-4803-af03-e67f637788e9.mirbase21.mirnas.quantification.txt

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+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	18073	8214.387655	N
+hsa-let-7a-2	18103	8228.023002	N
+hsa-let-7a-3	18257	8298.017784	N
+hsa-let-7b	53066	24119.111121	N
+hsa-let-7c	11523	5237.336853	N
+hsa-let-7d	816	370.881443	N
+hsa-let-7e	1380	627.225970	N
+hsa-let-7f-1	5923	2692.072046	N
+hsa-let-7f-2	6147	2793.882638	N
+hsa-let-7g	1186	539.050725	N
+hsa-let-7i	1508	685.403452	N
+hsa-mir-1-1	8	3.636093	N
+hsa-mir-1-2	6	2.727069	N
+hsa-mir-100	5133	2333.007903	Y
+hsa-mir-101-1	6907	3139.311433	N
+hsa-mir-101-2	6984	3174.308824	N
+hsa-mir-103a-1	26238	11925.474646	Y
+hsa-mir-103a-2	26310	11958.199480	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	0	0.000000	N
+hsa-mir-105-2	1	0.454512	N
+hsa-mir-106a	43	19.543998	Y
+hsa-mir-106b	607	275.888525	N
+hsa-mir-107	68	30.906787	Y
+hsa-mir-10a	233609	106177.994004	N
+hsa-mir-10b	122411	55637.216135	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	1	0.454512	N
+hsa-mir-1180	2	0.909023	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	1	0.454512	N
+hsa-mir-1225	0	0.000000	N
+hsa-mir-1226	1	0.454512	N
+hsa-mir-1227	0	0.000000	N
+hsa-mir-1228	3	1.363535	N
+hsa-mir-1229	0	0.000000	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	0	0.000000	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	40	18.180463	N
+hsa-mir-1245b	0	0.000000	N
+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	70	31.815810	N
+hsa-mir-1248	3	1.363535	N
+hsa-mir-1249	1	0.454512	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	2	0.909023	N
+hsa-mir-1255a	1	0.454512	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	9	4.090604	N
+hsa-mir-125a	682	309.976893	N
+hsa-mir-125b-1	366	166.351236	N
+hsa-mir-125b-2	399	181.350118	N
+hsa-mir-126	8138	3698.815179	N
+hsa-mir-1260a	0	0.000000	N
+hsa-mir-1260b	0	0.000000	N
+hsa-mir-1261	0	0.000000	N
+hsa-mir-1262	0	0.000000	N
+hsa-mir-1263	0	0.000000	N
+hsa-mir-1264	0	0.000000	N
+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	19	8.635720	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	0	0.000000	N
+hsa-mir-1269b	0	0.000000	N
+hsa-mir-127	1968	894.478775	N
+hsa-mir-1270	1	0.454512	N
+hsa-mir-1271	0	0.000000	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
+hsa-mir-1273d	0	0.000000	N
+hsa-mir-1273e	0	0.000000	N
+hsa-mir-1273f	0	0.000000	N
+hsa-mir-1273g	0	0.000000	N
+hsa-mir-1273h	0	0.000000	N
+hsa-mir-1275	0	0.000000	N
+hsa-mir-1276	0	0.000000	N
+hsa-mir-1277	0	0.000000	N
+hsa-mir-1278	1	0.454512	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	113	51.359808	N
+hsa-mir-128-2	55	24.998137	N
+hsa-mir-1281	0	0.000000	N
+hsa-mir-1282	0	0.000000	N
+hsa-mir-1283-1	0	0.000000	N
+hsa-mir-1283-2	0	0.000000	N
+hsa-mir-1284	1	0.454512	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	31	14.089859	N
+hsa-mir-1288	1	0.454512	N
+hsa-mir-1289-1	0	0.000000	N
+hsa-mir-1289-2	0	0.000000	N
+hsa-mir-129-1	3	1.363535	N
+hsa-mir-129-2	0	0.000000	N
+hsa-mir-1290	0	0.000000	N
+hsa-mir-1291	3	1.363535	N
+hsa-mir-1292	2	0.909023	N
+hsa-mir-1293	0	0.000000	N
+hsa-mir-1294	0	0.000000	N
+hsa-mir-1295a	0	0.000000	N
+hsa-mir-1295b	0	0.000000	N
+hsa-mir-1296	6	2.727069	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	14	6.363162	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
+hsa-mir-1302-9	0	0.000000	N
+hsa-mir-1303	0	0.000000	N
+hsa-mir-1304	0	0.000000	N
+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	7	3.181581	N
+hsa-mir-1307	858	389.970929	N
+hsa-mir-130a	122	55.450412	N
+hsa-mir-130b	24	10.908278	N
+hsa-mir-132	119	54.086877	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	1.818046	N
+hsa-mir-133a-2	3	1.363535	N
+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	1863	846.755060	N
+hsa-mir-1343	0	0.000000	N
+hsa-mir-135a-1	1	0.454512	N
+hsa-mir-135a-2	1	0.454512	N
+hsa-mir-135b	14	6.363162	N
+hsa-mir-136	33	14.998882	N
+hsa-mir-137	1	0.454512	N
+hsa-mir-138-1	3	1.363535	N
+hsa-mir-138-2	1	0.454512	N
+hsa-mir-139	128	58.177481	N
+hsa-mir-140	1884	856.299803	N
+hsa-mir-141	4397	1998.487385	N
+hsa-mir-142	5290	2404.366220	N
+hsa-mir-143	27028	12284.538789	N
+hsa-mir-144	228	103.628639	N
+hsa-mir-145	3942	1791.684620	N
+hsa-mir-1468	3	1.363535	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	245	111.355335	N
+hsa-mir-146b	2269	1031.286759	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	9	4.090604	N
+hsa-mir-148a	197221	89639.226894	N
+hsa-mir-148b	306	139.080541	N
+hsa-mir-149	182	82.721106	N
+hsa-mir-150	1016	461.783758	N
+hsa-mir-151a	2512	1141.733071	N
+hsa-mir-151b	4	1.818046	N
+hsa-mir-152	309	140.444076	N
+hsa-mir-153-1	12	5.454139	N
+hsa-mir-153-2	330	149.988819	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	18	8.181208	N
+hsa-mir-155	994	451.784503	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	312	141.807611	N
+hsa-mir-15b	211	95.901942	N
+hsa-mir-16-1	510	231.800902	N
+hsa-mir-16-2	540	245.436249	N
+hsa-mir-17	757	344.065261	Y
+hsa-mir-181a-1	3176	1443.528755	N
+hsa-mir-181a-2	3275	1488.525401	N
+hsa-mir-181b-1	666	302.704707	N
+hsa-mir-181b-2	638	289.978383	N
+hsa-mir-181c	121	54.995900	N
+hsa-mir-181d	13	5.908650	N
+hsa-mir-182	181251	82380.677077	N
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+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	38534	17514.148945	N
+hsa-mir-184	1980	899.932914	N
+hsa-mir-185	111	50.450785	N
+hsa-mir-186	743	337.702099	N
+hsa-mir-187	27	12.271812	N
+hsa-mir-188	4	1.818046	N
+hsa-mir-18a	11	4.999627	N
+hsa-mir-18b	0	0.000000	N
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+hsa-mir-1909	0	0.000000	N
+hsa-mir-190a	1	0.454512	N
+hsa-mir-190b	78	35.451903	N
+hsa-mir-191	3936	1788.957550	N
+hsa-mir-1910	0	0.000000	N
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+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	1111	504.962357	N
+hsa-mir-193a	593	269.525363	N
+hsa-mir-193b	114	51.814319	N
+hsa-mir-194-1	393	178.623048	N
+hsa-mir-194-2	435	197.712534	N
+hsa-mir-195	53	24.089113	N
+hsa-mir-196a-1	1739	790.395625	N
+hsa-mir-196a-2	2032	923.567516	N
+hsa-mir-196b	322	146.352726	N
+hsa-mir-197	447	203.166673	N
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+hsa-mir-1973	0	0.000000	N
+hsa-mir-1976	4	1.818046	N
+hsa-mir-198	0	0.000000	N
+hsa-mir-199a-1	5246	2384.367711	Y
+hsa-mir-199a-2	8018	3644.273790	Y
+hsa-mir-199b	9250	4204.232048	Y
+hsa-mir-19a	47	21.362044	N
+hsa-mir-19b-1	137	62.268085	N
+hsa-mir-19b-2	158	71.812828	N
+hsa-mir-200a	3228	1467.163357	N
+hsa-mir-200b	2622	1191.729344	N
+hsa-mir-200c	31588	14357.111561	N
+hsa-mir-202	1	0.454512	N
+hsa-mir-203a	12285	5583.674672	N
+hsa-mir-203b	91	41.360553	N
+hsa-mir-204	5	2.272558	N
+hsa-mir-205	2179	990.380717	N
+hsa-mir-2052	0	0.000000	N
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+hsa-mir-208b	0	0.000000	N
+hsa-mir-20a	357	162.260631	N
+hsa-mir-20b	85	38.633484	N
+hsa-mir-21	558799	253980.612354	N
+hsa-mir-210	283	128.626775	N
+hsa-mir-211	0	0.000000	N
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+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	3	1.363535	N
+hsa-mir-2115	18	8.181208	N
+hsa-mir-2116	0	0.000000	N
+hsa-mir-2117	0	0.000000	N
+hsa-mir-212	6	2.727069	N
+hsa-mir-214	85	38.633484	N
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+hsa-mir-216b	0	0.000000	N
+hsa-mir-217	32	14.544370	N
+hsa-mir-218-1	59	26.816183	N
+hsa-mir-218-2	60	27.270694	N
+hsa-mir-219a-1	3	1.363535	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	4	1.818046	N
+hsa-mir-22	130393	59265.127509	N
+hsa-mir-221	168	76.357944	N
+hsa-mir-222	61	27.725206	N
+hsa-mir-223	410	186.349745	N
+hsa-mir-224	23	10.453766	N
+hsa-mir-2276	1	0.454512	N
+hsa-mir-2277	0	0.000000	N
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+hsa-mir-2355	52	23.634602	N
+hsa-mir-2392	0	0.000000	N
+hsa-mir-23a	4085	1856.679775	Y
+hsa-mir-23b	874	397.243115	Y
+hsa-mir-23c	0	0.000000	N
+hsa-mir-24-1	762	346.337818	N
+hsa-mir-24-2	800	363.609258	N
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+hsa-mir-25	12991	5904.559842	N
+hsa-mir-2681	0	0.000000	N
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+hsa-mir-26a-1	2157	980.381462	N
+hsa-mir-26a-2	2219	1008.561180	N
+hsa-mir-26b	2780	1263.542172	N
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+hsa-mir-27b	827	375.881071	Y
+hsa-mir-28	6203	2819.335286	N
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+hsa-mir-297	0	0.000000	N
+hsa-mir-298	0	0.000000	N
+hsa-mir-299	9	4.090604	N
+hsa-mir-29a	8416	3825.169396	N
+hsa-mir-29b-1	783	355.882561	N
+hsa-mir-29b-2	1080	490.872499	N
+hsa-mir-29c	5742	2609.805451	N
+hsa-mir-300	0	0.000000	N
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+hsa-mir-3065	23	10.453766	N
+hsa-mir-3074	19	8.635720	N
+hsa-mir-30a	101995	46357.907865	Y
+hsa-mir-30b	1134	515.416124	N
+hsa-mir-30c-1	1227	557.685700	N
+hsa-mir-30c-2	1257	571.321047	N
+hsa-mir-30d	17532	7968.496894	N
+hsa-mir-30e	24614	11187.347852	Y
+hsa-mir-31	9	4.090604	N
+hsa-mir-3115	0	0.000000	N
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+hsa-mir-3129	0	0.000000	N
+hsa-mir-3130-1	2	0.909023	N
+hsa-mir-3130-2	1	0.454512	N
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+hsa-mir-378j	0	0.000000	N
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+hsa-mir-381	83	37.724461	N
+hsa-mir-382	83	37.724461	N
+hsa-mir-383	4	1.818046	N
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+hsa-mir-3912	2	0.909023	N
+hsa-mir-3913-1	3	1.363535	N
+hsa-mir-3913-2	4	1.818046	N
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+hsa-mir-3915	0	0.000000	N
+hsa-mir-3916	0	0.000000	N
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+hsa-mir-3920	1	0.454512	N
+hsa-mir-3921	0	0.000000	N
+hsa-mir-3922	1	0.454512	N
+hsa-mir-3923	0	0.000000	N
+hsa-mir-3924	0	0.000000	N
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+hsa-mir-484	91	41.360553	N
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+hsa-mir-486-2	19	8.635720	N
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+hsa-mir-539	42	19.089486	N
+hsa-mir-541	3	1.363535	N
+hsa-mir-542	582	264.525735	N
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+hsa-mir-6509	1	0.454512	N
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+hsa-mir-6511b-2	1	0.454512	N
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+hsa-mir-653	37	16.816928	N
+hsa-mir-654	40	18.180463	N
+hsa-mir-655	11	4.999627	N
+hsa-mir-656	2	0.909023	N
+hsa-mir-657	0	0.000000	N
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+hsa-mir-660	64	29.088741	N
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+hsa-mir-663b	0	0.000000	N
+hsa-mir-664a	63	28.634229	N
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data/gdc_data_organized/67eef990-5ff4-45d1-843d-d22d7848f130/nationwidechildrens.org_ssf.TCGA-A7-A0CG.xml

@@ -0,0 +1,93 @@
+<?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">6B1C2E88-B2F6-4615-A3E3-9539CE657C2E</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">47.98.0</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-A7-A0CG</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">67eef990-5ff4-45d1-843d-d22d7848f130</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A7</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A0CG</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">f2deda2c-63c8-4b4f-a725-381f00298cd0</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="">13</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="151127">Excisional Biopsy</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="151128" 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="151129">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="151130"/>
+                <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="151131">202</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="151134">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="151132">90</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="151133">5</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">28</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="151204">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="151205">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="151207">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="151206">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="151135">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="151137">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="151209">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="151209">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="151210">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">9</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="740928"/>
+                <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="151120">Mixed Histology (please specify)</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="151121" 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="151123">Right</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="151123">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="151123"/>
+                    </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">18abe541-9d31-4f83-9422-d72cb3237c56</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="Not Available" restricted="false" source_system_identifier="151183"/>
+                <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="151184"/>
+                <ssf:days_to_normal_sample_procurement precision="day" xsd_ver="2.3" tier="1" cde="3288496" owner="TSS" procurement_status="Not Available" preferred_name="normal_control_procurement_days_to" display_order="55" cde_ver="1.000"/>
+                <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="151185"/>
+                <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="151176"/>
+                <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="151175"/>
+                <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="151174"/>
+                <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="151177"/>
+                <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="Not Available" restricted="false" source_system_identifier="151178"/>
+                        <ssf:other_anatomic_site_normal_tissue preferred_name="normal_control_site_other" display_order="58" cde="3288189" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="151179"/>
+                    </ssf:normal_control_location>
+                </ssf:normal_control_locations>
+            </ssf:normal_control>
+        </ssf:normal_controls>
+    </ssf:patient>
+</ssf:tcga_bcr>

data/gdc_data_organized/680f23a9-fcce-493e-b908-27c1ad202e4c/TCGA-BRCA.62b607cb-63e1-4619-993e-94a5d696b1a7.ascat3.allelic_specific.seg.txt

@@ -0,0 +1,32 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr1	61735	185567697	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr1	185568312	186969171	2	2	0
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr1	186969287	248930189	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr2	12784	115035	2	2	0
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr2	115360	242147305	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr3	18667	198169247	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr4	12281	190106768	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr5	15532	181363319	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr6	149661	170741917	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr7	43259	108045495	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr7	108046012	109793741	2	2	0
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr7	109797035	159334314	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr8	81254	145072769	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr9	46587	138200944	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr10	26823	133114635	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr10	133121116	133769379	2	2	0
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr11	198572	135074876	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr12	51460	133201603	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr13	18452809	114342922	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr14	18225647	106877229	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr15	19811075	101928837	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr16	10777	31525098	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr16	31525421	48436335	2	2	0
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr16	48437314	90221127	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr17	150733	83090856	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr18	48133	80257174	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr19	90910	58586487	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr20	80664	64324800	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr21	10336543	46677045	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chr22	15294545	50796027	2	1	1
+62b607cb-63e1-4619-993e-94a5d696b1a7	chrX	251810	156004181	2	1	1

data/gdc_data_organized/72cd1b17-d349-4551-83f7-3062ce9db865/6c22c3e5-a00a-4ae4-a1a7-096efa3c290a.mirbase21.mirnas.quantification.txt

@@ -0,0 +1,1882 @@
+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	24911	14045.864023	N
+hsa-let-7a-2	24866	14020.491140	Y
+hsa-let-7a-3	25112	14159.196232	N
+hsa-let-7b	49388	27847.020688	N
+hsa-let-7c	7918	4464.499672	Y
+hsa-let-7d	891	502.383078	N
+hsa-let-7e	1664	938.232818	N
+hsa-let-7f-1	8901	5018.756199	N
+hsa-let-7f-2	9109	5136.035301	N
+hsa-let-7g	1123	633.194384	N
+hsa-let-7i	820	462.350307	N
+hsa-mir-1-1	3	1.691526	N
+hsa-mir-1-2	8	4.510735	N
+hsa-mir-100	10545	5945.712180	N
+hsa-mir-101-1	19187	10818.433343	N
+hsa-mir-101-2	19260	10859.593797	N
+hsa-mir-103a-1	10199	5750.622904	Y
+hsa-mir-103a-2	10278	5795.166409	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	1	0.563842	N
+hsa-mir-105-2	0	0.000000	N
+hsa-mir-106a	20	11.276837	Y
+hsa-mir-106b	560	315.751429	N
+hsa-mir-107	97	54.692658	Y
+hsa-mir-10a	33314	18783.826986	N
+hsa-mir-10b	99782	56261.266265	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	0	0.000000	N
+hsa-mir-1180	2	1.127684	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	1	0.563842	N
+hsa-mir-1185-2	0	0.000000	N
+hsa-mir-1193	0	0.000000	N
+hsa-mir-1197	1	0.563842	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	1	0.563842	N
+hsa-mir-1225	0	0.000000	N
+hsa-mir-1226	0	0.000000	N
+hsa-mir-1227	1	0.563842	N
+hsa-mir-1228	2	1.127684	N
+hsa-mir-1229	0	0.000000	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	0	0.000000	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	3	1.691526	N
+hsa-mir-1245b	1	0.563842	N
+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	32	18.042939	N
+hsa-mir-1248	2	1.127684	N
+hsa-mir-1249	0	0.000000	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	2.255367	N
+hsa-mir-125a	1120	631.502858	N
+hsa-mir-125b-1	603	339.996628	N
+hsa-mir-125b-2	607	342.251996	N
+hsa-mir-126	7426	4187.089488	N
+hsa-mir-1260a	0	0.000000	N
+hsa-mir-1260b	0	0.000000	N
+hsa-mir-1261	0	0.000000	N
+hsa-mir-1262	0	0.000000	N
+hsa-mir-1263	0	0.000000	N
+hsa-mir-1264	0	0.000000	N
+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	2	1.127684	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	0	0.000000	N
+hsa-mir-1269b	0	0.000000	N
+hsa-mir-127	2021	1139.524354	N
+hsa-mir-1270	4	2.255367	N
+hsa-mir-1271	8	4.510735	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
+hsa-mir-1273d	0	0.000000	N
+hsa-mir-1273e	0	0.000000	N
+hsa-mir-1273f	0	0.000000	N
+hsa-mir-1273g	0	0.000000	N
+hsa-mir-1273h	0	0.000000	N
+hsa-mir-1275	3	1.691526	N
+hsa-mir-1276	0	0.000000	N
+hsa-mir-1277	4	2.255367	N
+hsa-mir-1278	0	0.000000	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	109	61.458760	N
+hsa-mir-128-2	75	42.288138	N
+hsa-mir-1281	0	0.000000	N
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+hsa-mir-1285-1	0	0.000000	N
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+hsa-mir-1286	0	0.000000	N
+hsa-mir-1287	69	38.905087	N
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+hsa-mir-1290	0	0.000000	N
+hsa-mir-1291	2	1.127684	N
+hsa-mir-1292	0	0.000000	N
+hsa-mir-1293	0	0.000000	N
+hsa-mir-1294	2	1.127684	N
+hsa-mir-1295a	2	1.127684	N
+hsa-mir-1295b	0	0.000000	N
+hsa-mir-1296	8	4.510735	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	14	7.893786	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
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+hsa-mir-1302-4	0	0.000000	N
+hsa-mir-1302-5	0	0.000000	N
+hsa-mir-1302-6	0	0.000000	N
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+hsa-mir-1303	0	0.000000	N
+hsa-mir-1304	1	0.563842	N
+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	6	3.383051	N
+hsa-mir-1307	822	463.477991	N
+hsa-mir-130a	92	51.873449	N
+hsa-mir-130b	23	12.968362	N
+hsa-mir-132	134	75.554806	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	0	0.000000	N
+hsa-mir-133a-2	1	0.563842	N
+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	826	465.733358	N
+hsa-mir-1343	0	0.000000	N
+hsa-mir-135a-1	1	0.563842	N
+hsa-mir-135a-2	0	0.000000	N
+hsa-mir-135b	1	0.563842	N
+hsa-mir-136	109	61.458760	N
+hsa-mir-137	0	0.000000	N
+hsa-mir-138-1	4	2.255367	N
+hsa-mir-138-2	1	0.563842	N
+hsa-mir-139	67	37.777403	N
+hsa-mir-140	1149	647.854272	N
+hsa-mir-141	1955	1102.310793	N
+hsa-mir-142	15429	8699.515716	N
+hsa-mir-143	91162	51400.949622	N
+hsa-mir-144	33	18.606781	N
+hsa-mir-145	2106	1187.450911	N
+hsa-mir-1468	3	1.691526	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	427	240.760465	N
+hsa-mir-146b	930	524.372909	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	7	3.946893	N
+hsa-mir-148a	170074	95894.836731	N
+hsa-mir-148b	260	146.598878	N
+hsa-mir-149	11	6.202260	N
+hsa-mir-150	2911	1641.343590	N
+hsa-mir-151a	2613	1473.318722	N
+hsa-mir-151b	1	0.563842	N
+hsa-mir-152	760	428.519797	N
+hsa-mir-153-1	1	0.563842	N
+hsa-mir-153-2	67	37.777403	N
+hsa-mir-1537	1	0.563842	N
+hsa-mir-1538	1	0.563842	N
+hsa-mir-1539	0	0.000000	N
+hsa-mir-154	9	5.074577	N
+hsa-mir-155	767	432.466690	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	175	98.672322	N
+hsa-mir-15b	161	90.778536	N
+hsa-mir-16-1	544	306.729960	N
+hsa-mir-16-2	564	318.006797	N
+hsa-mir-17	346	195.089276	Y
+hsa-mir-181a-1	1347	759.494956	N
+hsa-mir-181a-2	2778	1566.352626	N
+hsa-mir-181b-1	197	111.076842	N
+hsa-mir-181b-2	143	80.629383	N
+hsa-mir-181c	120	67.661021	N
+hsa-mir-181d	11	6.202260	N
+hsa-mir-182	50313	28368.574388	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	14406	8122.705516	N
+hsa-mir-184	713	402.019230	N
+hsa-mir-185	69	38.905087	N
+hsa-mir-186	560	315.751429	N
+hsa-mir-187	67	37.777403	N
+hsa-mir-188	4	2.255367	N
+hsa-mir-18a	7	3.946893	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	6	3.383051	N
+hsa-mir-190b	29	16.351413	N
+hsa-mir-191	636	358.603409	N
+hsa-mir-1910	1	0.563842	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	441	248.654250	Y
+hsa-mir-193a	387	218.206791	N
+hsa-mir-193b	127	71.607913	N
+hsa-mir-194-1	84	47.362714	N
+hsa-mir-194-2	95	53.564975	N
+hsa-mir-195	83	46.798873	N
+hsa-mir-196a-1	361	203.546903	N
+hsa-mir-196a-2	439	247.526567	N
+hsa-mir-196b	750	422.881378	N
+hsa-mir-197	298	168.024868	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	11	6.202260	N
+hsa-mir-198	0	0.000000	N
+hsa-mir-199a-1	7159	4036.543717	Y
+hsa-mir-199a-2	12441	7014.756305	Y
+hsa-mir-199b	16804	9474.798243	Y
+hsa-mir-19a	21	11.840679	N
+hsa-mir-19b-1	46	25.936725	N
+hsa-mir-19b-2	28	15.787571	N
+hsa-mir-200a	476	268.388715	N
+hsa-mir-200b	473	266.697189	N
+hsa-mir-200c	14652	8261.410608	N
+hsa-mir-202	1	0.563842	N
+hsa-mir-203a	7658	4317.900794	N
+hsa-mir-203b	28	15.787571	N
+hsa-mir-204	7	3.946893	N
+hsa-mir-205	501	282.484761	N
+hsa-mir-2052	0	0.000000	N
+hsa-mir-2053	0	0.000000	N
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+hsa-mir-206	0	0.000000	N
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+hsa-mir-208b	0	0.000000	N
+hsa-mir-20a	139	78.374015	N
+hsa-mir-20b	25	14.096046	N
+hsa-mir-21	499279	281514.388962	N
+hsa-mir-210	59	33.266668	N
+hsa-mir-211	0	0.000000	N
+hsa-mir-2110	2	1.127684	N
+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	0	0.000000	N
+hsa-mir-2115	0	0.000000	N
+hsa-mir-2116	1	0.563842	N
+hsa-mir-2117	0	0.000000	N
+hsa-mir-212	3	1.691526	N
+hsa-mir-214	44	24.809041	N
+hsa-mir-215	3	1.691526	Y
+hsa-mir-216a	0	0.000000	N
+hsa-mir-216b	0	0.000000	N
+hsa-mir-217	21	11.840679	N
+hsa-mir-218-1	49	27.628250	N
+hsa-mir-218-2	49	27.628250	N
+hsa-mir-219a-1	1	0.563842	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	0	0.000000	N
+hsa-mir-22	127348	71804.130367	N
+hsa-mir-221	144	81.193225	N
+hsa-mir-222	75	42.288138	N
+hsa-mir-223	182	102.619214	N
+hsa-mir-224	7	3.946893	N
+hsa-mir-2276	0	0.000000	N
+hsa-mir-2277	1	0.563842	N
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+hsa-mir-2355	68	38.341245	N
+hsa-mir-2392	0	0.000000	N
+hsa-mir-23a	6707	3781.687206	Y
+hsa-mir-23b	1616	911.168410	Y
+hsa-mir-23c	0	0.000000	N
+hsa-mir-24-1	480	270.644082	N
+hsa-mir-24-2	485	273.463291	N
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+hsa-mir-25	8157	4599.257871	N
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+hsa-mir-26a-1	1610	907.785359	N
+hsa-mir-26a-2	1553	875.646374	N
+hsa-mir-26b	896	505.202287	N
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+hsa-mir-27b	596	336.049735	Y
+hsa-mir-28	4809	2711.515398	N
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+hsa-mir-298	0	0.000000	N
+hsa-mir-299	6	3.383051	N
+hsa-mir-29a	8245	4648.875953	N
+hsa-mir-29b-1	575	324.209057	Y
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+hsa-mir-3065	30	16.915255	N
+hsa-mir-3074	18	10.149153	N
+hsa-mir-30a	128948	72706.277308	Y
+hsa-mir-30b	369	208.057638	Y
+hsa-mir-30c-1	574	323.645215	Y
+hsa-mir-30c-2	724	408.221491	Y
+hsa-mir-30d	9358	5276.431919	N
+hsa-mir-30e	35428	19975.788631	Y
+hsa-mir-31	5	2.819209	N
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+hsa-mir-320b-2	5	2.819209	Y
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+hsa-mir-320d-2	1	0.563842	N
+hsa-mir-320e	1	0.563842	N
+hsa-mir-323a	4	2.255367	N
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+hsa-mir-330	16	9.021469	N
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+hsa-mir-3607	377	212.568373	N
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+hsa-mir-361	392	221.026000	N
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+hsa-mir-3612	0	0.000000	N
+hsa-mir-3613	10	5.638418	N
+hsa-mir-3614	6	3.383051	N
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+hsa-mir-3617	0	0.000000	N
+hsa-mir-3618	0	0.000000	N
+hsa-mir-3619	0	0.000000	N
+hsa-mir-362	18	10.149153	N
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+hsa-mir-3622a	1	0.563842	N
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+hsa-mir-3648-1	0	0.000000	N
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+hsa-mir-3649	0	0.000000	N
+hsa-mir-3650	0	0.000000	N
+hsa-mir-3651	1	0.563842	N
+hsa-mir-3652	1	0.563842	N
+hsa-mir-3653	22	12.404520	N
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+hsa-mir-3658	0	0.000000	N
+hsa-mir-3659	0	0.000000	N
+hsa-mir-365a	67	37.777403	Y
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+hsa-mir-3661	0	0.000000	N
+hsa-mir-3662	0	0.000000	N
+hsa-mir-3663	0	0.000000	N
+hsa-mir-3664	1	0.563842	N
+hsa-mir-3665	0	0.000000	N
+hsa-mir-3666	0	0.000000	N
+hsa-mir-3667	0	0.000000	N
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+hsa-mir-422a	0	0.000000	N
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+hsa-mir-424	306	172.535602	N
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+hsa-mir-4708	0	0.000000	N
+hsa-mir-4709	2	1.127684	N
+hsa-mir-4710	0	0.000000	N
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+hsa-mir-4713	0	0.000000	N
+hsa-mir-4714	1	0.563842	N
+hsa-mir-4715	0	0.000000	N
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+hsa-mir-4728	1	0.563842	N
+hsa-mir-4729	0	0.000000	N
+hsa-mir-4730	0	0.000000	N
+hsa-mir-4731	1	0.563842	N
+hsa-mir-4732	0	0.000000	N
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+hsa-mir-4741	0	0.000000	N
+hsa-mir-4742	2	1.127684	N
+hsa-mir-4743	0	0.000000	N
+hsa-mir-4744	0	0.000000	N
+hsa-mir-4745	0	0.000000	N
+hsa-mir-4746	3	1.691526	N
+hsa-mir-4747	0	0.000000	N
+hsa-mir-4748	1	0.563842	N
+hsa-mir-4749	0	0.000000	N
+hsa-mir-4750	0	0.000000	N
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+hsa-mir-4752	0	0.000000	N
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+hsa-mir-4754	0	0.000000	N
+hsa-mir-4755	0	0.000000	N
+hsa-mir-4756	1	0.563842	N
+hsa-mir-4757	0	0.000000	N
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+hsa-mir-4760	0	0.000000	N
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+hsa-mir-4771-1	0	0.000000	N
+hsa-mir-4771-2	0	0.000000	N
+hsa-mir-4772	12	6.766102	N
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+hsa-mir-4786	1	0.563842	N
+hsa-mir-4787	0	0.000000	N
+hsa-mir-4788	0	0.000000	N
+hsa-mir-4789	0	0.000000	N
+hsa-mir-4790	1	0.563842	N
+hsa-mir-4791	1	0.563842	N
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+hsa-mir-4798	0	0.000000	N
+hsa-mir-4799	0	0.000000	N
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+hsa-mir-4801	0	0.000000	N
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+hsa-mir-4803	0	0.000000	N
+hsa-mir-4804	0	0.000000	N
+hsa-mir-483	6	3.383051	N
+hsa-mir-484	50	28.192092	N
+hsa-mir-485	1	0.563842	N
+hsa-mir-486-1	9	5.074577	N
+hsa-mir-486-2	9	5.074577	N
+hsa-mir-487a	1	0.563842	N
+hsa-mir-487b	11	6.202260	N
+hsa-mir-488	3	1.691526	N
+hsa-mir-489	2	1.127684	N
+hsa-mir-490	0	0.000000	N
+hsa-mir-491	8	4.510735	N
+hsa-mir-492	0	0.000000	N
+hsa-mir-493	25	14.096046	N
+hsa-mir-494	1	0.563842	N
+hsa-mir-495	8	4.510735	N
+hsa-mir-496	4	2.255367	N
+hsa-mir-497	45	25.372883	N
+hsa-mir-498	0	0.000000	N
+hsa-mir-4999	3	1.691526	N
+hsa-mir-499a	1	0.563842	N
+hsa-mir-499b	0	0.000000	N
+hsa-mir-5000	8	4.510735	N
+hsa-mir-5001	3	1.691526	N
+hsa-mir-5002	0	0.000000	N
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+hsa-mir-5009	0	0.000000	N
+hsa-mir-500a	294	165.769500	Y
+hsa-mir-500b	9	5.074577	Y
+hsa-mir-501	54	30.447459	N
+hsa-mir-5010	1	0.563842	N
+hsa-mir-5011	0	0.000000	N
+hsa-mir-502	12	6.766102	Y
+hsa-mir-503	22	12.404520	N
+hsa-mir-504	4	2.255367	N
+hsa-mir-5047	0	0.000000	N
+hsa-mir-505	45	25.372883	N
+hsa-mir-506	0	0.000000	N
+hsa-mir-507	0	0.000000	N
+hsa-mir-508	14	7.893786	N
+hsa-mir-5087	0	0.000000	N
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+hsa-mir-509-1	0	0.000000	N
+hsa-mir-509-2	1	0.563842	N
+hsa-mir-509-3	1	0.563842	N
+hsa-mir-5090	0	0.000000	N
+hsa-mir-5091	1	0.563842	N
+hsa-mir-5092	0	0.000000	N
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+hsa-mir-510	0	0.000000	N
+hsa-mir-5100	0	0.000000	N
+hsa-mir-511	4	2.255367	N
+hsa-mir-512-1	0	0.000000	N
+hsa-mir-512-2	0	0.000000	N
+hsa-mir-513a-1	0	0.000000	N
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+hsa-mir-513c	0	0.000000	N
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+hsa-mir-514a-2	1	0.563842	N
+hsa-mir-514a-3	2	1.127684	N
+hsa-mir-514b	0	0.000000	N
+hsa-mir-515-1	0	0.000000	N
+hsa-mir-515-2	0	0.000000	N
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+hsa-mir-519a-2	1	0.563842	Y
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+hsa-mir-527	0	0.000000	N
+hsa-mir-532	920	518.734491	N
+hsa-mir-539	24	13.532204	N
+hsa-mir-541	1	0.563842	N
+hsa-mir-542	881	496.744659	N
+hsa-mir-543	5	2.819209	N
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+hsa-mir-544b	0	0.000000	N
+hsa-mir-545	2	1.127684	N
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+hsa-mir-548f-2	0	0.000000	N
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+hsa-mir-548f-4	0	0.000000	N
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+hsa-mir-548s	1	0.563842	N
+hsa-mir-548t	1	0.563842	N
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+hsa-mir-550a-2	6	3.383051	N
+hsa-mir-550a-3	1	0.563842	N
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+hsa-mir-551a	0	0.000000	N
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+hsa-mir-552	2	1.127684	N
+hsa-mir-553	0	0.000000	N
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+hsa-mir-557	0	0.000000	N
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+hsa-mir-5585	0	0.000000	N
+hsa-mir-5586	15	8.457628	N
+hsa-mir-5587	0	0.000000	N
+hsa-mir-5588	1	0.563842	N
+hsa-mir-5589	0	0.000000	N
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+hsa-mir-5680	1	0.563842	N
+hsa-mir-5681a	0	0.000000	N
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+hsa-mir-5683	55	31.011301	N
+hsa-mir-5684	1	0.563842	N
+hsa-mir-5685	0	0.000000	N
+hsa-mir-5687	0	0.000000	N
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+hsa-mir-5689	0	0.000000	N
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+hsa-mir-5691	1	0.563842	N
+hsa-mir-5692a-1	0	0.000000	N
+hsa-mir-5692a-2	0	0.000000	N
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+hsa-mir-5692c-1	0	0.000000	N
+hsa-mir-5692c-2	0	0.000000	N
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+hsa-mir-5694	1	0.563842	N
+hsa-mir-5695	0	0.000000	N
+hsa-mir-5696	1	0.563842	N
+hsa-mir-5697	0	0.000000	N
+hsa-mir-5698	0	0.000000	N
+hsa-mir-5699	2	1.127684	N
+hsa-mir-570	0	0.000000	N
+hsa-mir-5700	0	0.000000	N
+hsa-mir-5701-1	0	0.000000	N
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+hsa-mir-5705	0	0.000000	N
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+hsa-mir-5707	0	0.000000	N
+hsa-mir-5708	1	0.563842	N
+hsa-mir-571	0	0.000000	N
+hsa-mir-572	0	0.000000	N
+hsa-mir-573	1	0.563842	N
+hsa-mir-5739	0	0.000000	N
+hsa-mir-574	169	95.289271	N
+hsa-mir-575	0	0.000000	N
+hsa-mir-576	24	13.532204	N
+hsa-mir-577	1	0.563842	N
+hsa-mir-578	0	0.000000	N
+hsa-mir-5787	0	0.000000	N
+hsa-mir-579	0	0.000000	N
+hsa-mir-580	2	1.127684	N
+hsa-mir-581	2	1.127684	N
+hsa-mir-582	159	89.650852	N
+hsa-mir-583	0	0.000000	N
+hsa-mir-584	31	17.479097	N
+hsa-mir-585	0	0.000000	N
+hsa-mir-586	0	0.000000	N
+hsa-mir-587	0	0.000000	N
+hsa-mir-588	0	0.000000	N
+hsa-mir-589	92	51.873449	N
+hsa-mir-590	33	18.606781	N
+hsa-mir-591	0	0.000000	N
+hsa-mir-592	0	0.000000	N
+hsa-mir-593	0	0.000000	N
+hsa-mir-595	0	0.000000	N
+hsa-mir-596	0	0.000000	N
+hsa-mir-597	0	0.000000	N
+hsa-mir-598	25	14.096046	N
+hsa-mir-599	0	0.000000	N
+hsa-mir-600	0	0.000000	N
+hsa-mir-601	0	0.000000	N
+hsa-mir-602	0	0.000000	N
+hsa-mir-603	0	0.000000	N
+hsa-mir-604	0	0.000000	N
+hsa-mir-605	2	1.127684	N
+hsa-mir-606	0	0.000000	N
+hsa-mir-6068	0	0.000000	N
+hsa-mir-6069	0	0.000000	N
+hsa-mir-607	0	0.000000	N
+hsa-mir-6070	0	0.000000	N
+hsa-mir-6071	0	0.000000	N
+hsa-mir-6072	0	0.000000	N
+hsa-mir-6073	0	0.000000	N
+hsa-mir-6074	0	0.000000	N
+hsa-mir-6075	0	0.000000	N
+hsa-mir-6076	0	0.000000	N
+hsa-mir-6077	0	0.000000	N
+hsa-mir-6078	0	0.000000	N
+hsa-mir-6079	0	0.000000	N
+hsa-mir-608	0	0.000000	N
+hsa-mir-6080	0	0.000000	N
+hsa-mir-6081	0	0.000000	N
+hsa-mir-6082	0	0.000000	N
+hsa-mir-6083	0	0.000000	N
+hsa-mir-6084	0	0.000000	N
+hsa-mir-6085	0	0.000000	N
+hsa-mir-6086	0	0.000000	N
+hsa-mir-6087	0	0.000000	N
+hsa-mir-6088	0	0.000000	N
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+hsa-mir-92a-2	1375	775.282527	N
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+TCGA-A2-A0YI-01A-31D-A894-36	chrY	11333001	11402000	22	-1.228158
+TCGA-A2-A0YI-01A-31D-A894-36	chrY	11403001	11556000	8	-1.611277
+TCGA-A2-A0YI-01A-31D-A894-36	chrY	11643001	15897000	11	-0.260142
+TCGA-A2-A0YI-01A-31D-A894-36	chrY	26403001	26442000	5	-1.799737
+TCGA-A2-A0YI-01A-31D-A894-36	chrY	26638001	56708000	6	-1.086459
+TCGA-A2-A0YI-01A-31D-A894-36	chrY	56821001	56887000	66	-0.323255
+TCGA-A2-A0YI-01A-31D-A894-36	chrM	1	16569	17	0.348536

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data/gdc_data_organized/72cd1b17-d349-4551-83f7-3062ce9db865/nationwidechildrens.org_biospecimen.TCGA-A2-A0YI.xml

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+        <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/>
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+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Completed" owner="">FEMALE</shared:gender>
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+        </bio:bcr_canonical_check>
+        <bio:samples>
+            <bio:sample>
+                <admin:additional_studies/>
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+                <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>
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+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
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+                                <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>
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+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
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+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100473226</bio:biospecimen_barcode_bottom>
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+                                        <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="">A10L</bio:plate_id>
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+                                <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=""/>
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+                                <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>
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+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
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+                            <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-A2-A0YI-01A-31R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">055cdbf7-8b55-4e1e-bd44-b65abb68fdfc</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="">A10I</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-01A-31R-A10I-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">64489b91-3117-4dac-ab66-619944d206c3</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="">A</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="">0100472956</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="">A10J</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-01A-31R-A10J-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4de3ad78-68e4-4ab9-b1f6-eb0666140761</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="">A</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="">0100471652</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="">1.50</bio:ratio_28s_18s>
+                                    <bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">9.00</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-A2-A0YI-01A-31W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">B32E075C-308C-462B-AEC8-85BDA356C4B0</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="">A124</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="">24</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">01</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-A2-A0YI-01A-31W-A124-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0e2ea6e0-493d-4619-9e22-ccb4163fd950</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="">A</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="">0099054784</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="">BOTTOM</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="">59</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</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="">2</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-A2-A0YI-01A-03-BSC</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">29006cd1-80d6-4b68-a760-ba91a34b9942</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0YI-01A-03-BSC.29006cd1-80d6-4b68-a760-ba91a34b9942.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="">69</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="">20</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">1</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="">15</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-A2-A0YI-01A-03-TSC</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">315f5bb4-4ef4-471e-b5b4-ae73a6038c20</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0YI-01A-03-TSC.315f5bb4-4ef4-471e-b5b4-ae73a6038c20.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="">CEFD12BB-1AF7-400D-8A84-49650DFDD8A5</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0YI.CEFD12BB-1AF7-400D-8A84-49650DFDD8A5.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="">1CF2EC2D-C722-467F-8832-409B823E8D8F</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="">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="">303</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-A2-A0YI-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0499c083-b94c-4dab-9860-b21cda51c8a3</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="">07</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">10</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">91a74370-053e-45f5-a703-6984f15cd9e9</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="">0.14</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.85</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-A2-A0YI-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7d546df9-435f-4a44-a4a1-66f82f0428e9</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="">A10K</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-10A-01D-A10K-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3ec0a0cc-7798-4c71-aa84-356e557074ba</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.14</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.82</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="">A</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="">0100474591</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="">A10L</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-10A-01D-A10L-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fe301458-26a7-4062-a6a8-6237d8709f88</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.14</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">0.93</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="">A</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="">0100473631</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="">A10M</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0YI-10A-01D-A10M-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9764d7b0-0bbc-44e5-9207-2215d542ed54</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.07</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.82</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">A</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="">0100474495</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="">Pre-extracted DNA received by TSS</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-A2-A0YI-10A-01W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2423EBF8-41BD-42BC-A667-3A815CDC565D</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="">A124</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="">24</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">01</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-A2-A0YI-10A-01W-A124-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">aa86c730-63f4-49cf-a064-fae5b749dfac</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="">A</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="">0105041348</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/733a2a0f-b37a-4b81-b49e-3c0f30d1eb37/BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_C01_666986.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,470 @@
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data/gdc_data_organized/733a2a0f-b37a-4b81-b49e-3c0f30d1eb37/BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_D01_666888.grch38.seg.v2.txt

@@ -0,0 +1,409 @@
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+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	8691	6507.241374	N
+hsa-let-7a-2	8480	6349.258642	N
+hsa-let-7a-3	8468	6340.273842	N
+hsa-let-7b	32963	24680.496770	N
+hsa-let-7c	961	719.532731	N
+hsa-let-7d	605	452.983665	N
+hsa-let-7e	541	405.064732	N
+hsa-let-7f-1	1641	1228.671395	N
+hsa-let-7f-2	1720	1287.821328	N
+hsa-let-7g	722	540.585465	N
+hsa-let-7i	774	579.519598	N
+hsa-mir-1-1	0	0.000000	N
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+hsa-mir-100	692	518.123465	N
+hsa-mir-101-1	1681	1258.620728	N
+hsa-mir-101-2	1739	1302.047262	N
+hsa-mir-103a-1	11109	8317.678567	Y
+hsa-mir-103a-2	11170	8363.351300	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	0	0.000000	N
+hsa-mir-105-2	0	0.000000	N
+hsa-mir-106a	13	9.733533	Y
+hsa-mir-106b	155	116.053666	N
+hsa-mir-107	50	37.436667	Y
+hsa-mir-10a	35709	26736.518495	N
+hsa-mir-10b	61856	46313.648884	N
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+hsa-mir-1182	0	0.000000	N
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+hsa-mir-1184-1	0	0.000000	N
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+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	0	0.000000	N
+hsa-mir-1227	1	0.748733	N
+hsa-mir-1228	0	0.000000	N
+hsa-mir-1229	1	0.748733	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	0	0.000000	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
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+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	7	5.241133	N
+hsa-mir-1248	1	0.748733	N
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+hsa-mir-1251	0	0.000000	N
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+hsa-mir-1253	0	0.000000	N
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+hsa-mir-1254-2	1	0.748733	N
+hsa-mir-1255a	4	2.994933	N
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+hsa-mir-1257	0	0.000000	N
+hsa-mir-1258	0	0.000000	N
+hsa-mir-125a	509	381.105265	N
+hsa-mir-125b-1	76	56.903733	N
+hsa-mir-125b-2	82	61.396133	N
+hsa-mir-126	6393	4786.652181	N
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+hsa-mir-1260b	0	0.000000	N
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+hsa-mir-1262	2	1.497467	N
+hsa-mir-1263	0	0.000000	N
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+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	23	17.220867	N
+hsa-mir-1267	0	0.000000	N
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+hsa-mir-1269a	3	2.246200	N
+hsa-mir-1269b	0	0.000000	N
+hsa-mir-127	243	181.942199	N
+hsa-mir-1270	22	16.472133	N
+hsa-mir-1271	2	1.497467	N
+hsa-mir-1272	0	0.000000	N
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+hsa-mir-1277	4	2.994933	N
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+hsa-mir-128-1	44	32.944267	N
+hsa-mir-128-2	22	16.472133	N
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+hsa-mir-1287	23	17.220867	N
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+hsa-mir-1292	1	0.748733	N
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+hsa-mir-1294	0	0.000000	N
+hsa-mir-1295a	1	0.748733	N
+hsa-mir-1295b	1	0.748733	N
+hsa-mir-1296	0	0.000000	N
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+hsa-mir-1301	12	8.984800	N
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+hsa-mir-1306	7	5.241133	N
+hsa-mir-1307	456	341.422399	N
+hsa-mir-130a	28	20.964533	N
+hsa-mir-130b	18	13.477200	N
+hsa-mir-132	45	33.693000	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	0	0.000000	N
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+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	160	119.797333	N
+hsa-mir-1343	0	0.000000	N
+hsa-mir-135a-1	0	0.000000	N
+hsa-mir-135a-2	0	0.000000	N
+hsa-mir-135b	8	5.989867	N
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+hsa-mir-137	0	0.000000	N
+hsa-mir-138-1	0	0.000000	N
+hsa-mir-138-2	1	0.748733	N
+hsa-mir-139	43	32.195533	N
+hsa-mir-140	422	315.965465	N
+hsa-mir-141	2321	1737.810060	N
+hsa-mir-142	6834	5116.843580	N
+hsa-mir-143	3730	2792.775322	N
+hsa-mir-144	106	79.365733	N
+hsa-mir-145	867	649.151797	N
+hsa-mir-1468	0	0.000000	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	350	262.056666	N
+hsa-mir-146b	1300	973.353330	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	4	2.994933	N
+hsa-mir-148a	69708	52192.702995	N
+hsa-mir-148b	269	201.409266	N
+hsa-mir-149	71	53.160066	N
+hsa-mir-150	989	740.497264	N
+hsa-mir-151a	377	282.272466	N
+hsa-mir-151b	2	1.497467	N
+hsa-mir-152	432	323.452799	N
+hsa-mir-153-1	0	0.000000	N
+hsa-mir-153-2	110	82.360666	N
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+hsa-mir-1538	1	0.748733	N
+hsa-mir-1539	0	0.000000	N
+hsa-mir-154	4	2.994933	N
+hsa-mir-155	1362	1019.774796	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	186	139.264399	N
+hsa-mir-15b	213	159.480199	N
+hsa-mir-16-1	539	403.567265	N
+hsa-mir-16-2	584	437.260265	N
+hsa-mir-17	497	372.120465	Y
+hsa-mir-181a-1	628	470.204531	N
+hsa-mir-181a-2	688	515.128531	N
+hsa-mir-181b-1	117	87.601800	N
+hsa-mir-181b-2	126	94.340400	N
+hsa-mir-181c	51	38.185400	N
+hsa-mir-181d	16	11.979733	N
+hsa-mir-182	15951	11943.045353	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	4169	3121.469254	N
+hsa-mir-184	73	54.657533	N
+hsa-mir-185	82	61.396133	N
+hsa-mir-186	449	336.181265	N
+hsa-mir-187	43	32.195533	N
+hsa-mir-188	2	1.497467	N
+hsa-mir-18a	14	10.482267	N
+hsa-mir-18b	1	0.748733	N
+hsa-mir-1908	1	0.748733	N
+hsa-mir-1909	0	0.000000	N
+hsa-mir-190a	1	0.748733	N
+hsa-mir-190b	72	53.908800	N
+hsa-mir-191	2755	2062.760325	N
+hsa-mir-1910	0	0.000000	N
+hsa-mir-1911	0	0.000000	N
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+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	848	634.925864	Y
+hsa-mir-193a	251	187.932066	N
+hsa-mir-193b	86	64.391066	N
+hsa-mir-194-1	125	93.591666	N
+hsa-mir-194-2	170	127.284666	N
+hsa-mir-195	14	10.482267	N
+hsa-mir-196a-1	236	176.701066	N
+hsa-mir-196a-2	332	248.579466	N
+hsa-mir-196b	132	98.832800	N
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+hsa-mir-1972-2	0	0.000000	N
+hsa-mir-1973	0	0.000000	N
+hsa-mir-1976	8	5.989867	N
+hsa-mir-198	0	0.000000	N
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+hsa-mir-199a-2	1348	1009.292529	Y
+hsa-mir-199b	1752	1311.780795	Y
+hsa-mir-19a	38	28.451867	N
+hsa-mir-19b-1	79	59.149933	N
+hsa-mir-19b-2	64	47.918933	N
+hsa-mir-200a	418	312.970532	N
+hsa-mir-200b	220	164.721333	N
+hsa-mir-200c	21642	16204.086736	N
+hsa-mir-202	0	0.000000	N
+hsa-mir-203a	4497	3367.053787	N
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+hsa-mir-205	88	65.888533	N
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+hsa-mir-20b	68	50.913866	N
+hsa-mir-21	692395	518419.214294	N
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+hsa-mir-214	18	13.477200	N
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+hsa-mir-22	90061	67431.672468	N
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+hsa-mir-27b	108	80.863200	Y
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+hsa-mir-3202-2	0	0.000000	N
+hsa-mir-320a	457	342.171132	Y
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+hsa-mir-320b-2	5	3.743667	Y
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+hsa-mir-330	12	8.984800	N
+hsa-mir-331	21	15.723400	N
+hsa-mir-335	15	11.231000	N
+hsa-mir-337	8	5.989867	N
+hsa-mir-338	159	119.048600	N
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+hsa-mir-342	438	327.945199	N
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+hsa-mir-365b	81	60.647400	Y
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+hsa-mir-374a	1419	1062.452596	N
+hsa-mir-374b	86	64.391066	N
+hsa-mir-374c	0	0.000000	N
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+hsa-mir-377	0	0.000000	N
+hsa-mir-378a	92	68.883466	N
+hsa-mir-378b	0	0.000000	N
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+hsa-mir-381	9	6.738600	N
+hsa-mir-382	9	6.738600	N
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+hsa-mir-3926-1	1	0.748733	N
+hsa-mir-3926-2	1	0.748733	N
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+hsa-mir-3929	0	0.000000	N
+hsa-mir-3934	8	5.989867	N
+hsa-mir-3935	0	0.000000	N
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+hsa-mir-409	13	9.733533	N
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+hsa-mir-421	4	2.994933	N
+hsa-mir-422a	0	0.000000	N
+hsa-mir-423	129	96.586600	N
+hsa-mir-424	128	95.837866	N
+hsa-mir-425	634	474.696931	N
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+hsa-mir-450a-2	8	5.989867	N
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+hsa-mir-455	82	61.396133	N
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+hsa-mir-4633	0	0.000000	N
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+hsa-mir-4661	21	15.723400	N
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+hsa-mir-4665	0	0.000000	N
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+hsa-mir-4675	3	2.246200	N
+hsa-mir-4676	1	0.748733	N
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+hsa-mir-4743	0	0.000000	N
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+hsa-mir-4756	4	2.994933	N
+hsa-mir-4757	1	0.748733	N
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+hsa-mir-4772	8	5.989867	N
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+hsa-mir-4782	0	0.000000	N
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+hsa-mir-4785	0	0.000000	N
+hsa-mir-4786	1	0.748733	N
+hsa-mir-4787	1	0.748733	N
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+hsa-mir-484	88	65.888533	N
+hsa-mir-485	3	2.246200	N
+hsa-mir-486-1	8	5.989867	N
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+hsa-mir-487a	0	0.000000	N
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+hsa-mir-488	0	0.000000	N
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+hsa-mir-492	0	0.000000	N
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+hsa-mir-496	0	0.000000	N
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+hsa-mir-499b	0	0.000000	N
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+hsa-mir-5009	0	0.000000	N
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+hsa-mir-500b	8	5.989867	Y
+hsa-mir-501	62	46.421466	N
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+hsa-mir-5011	0	0.000000	N
+hsa-mir-502	7	5.241133	Y
+hsa-mir-503	75	56.155000	N
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+hsa-mir-532	573	429.024198	N
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+hsa-mir-542	387	289.759799	N
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+hsa-mir-548u	0	0.000000	N
+hsa-mir-548v	1	0.748733	N
+hsa-mir-548w	0	0.000000	N
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+hsa-mir-549a	0	0.000000	N
+hsa-mir-550a-1	1	0.748733	N
+hsa-mir-550a-2	2	1.497467	N
+hsa-mir-550a-3	1	0.748733	N
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+hsa-mir-557	0	0.000000	N
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+hsa-mir-5585	0	0.000000	N
+hsa-mir-5586	3	2.246200	N
+hsa-mir-5587	0	0.000000	N
+hsa-mir-5588	0	0.000000	N
+hsa-mir-5589	0	0.000000	N
+hsa-mir-559	0	0.000000	N
+hsa-mir-5590	0	0.000000	N
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+hsa-mir-568	0	0.000000	N
+hsa-mir-5680	0	0.000000	N
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+hsa-mir-5684	2	1.497467	N
+hsa-mir-5685	0	0.000000	N
+hsa-mir-5687	0	0.000000	N
+hsa-mir-5688	0	0.000000	N
+hsa-mir-5689	0	0.000000	N
+hsa-mir-569	0	0.000000	N
+hsa-mir-5690	0	0.000000	N
+hsa-mir-5691	0	0.000000	N
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+hsa-mir-5692b	0	0.000000	N
+hsa-mir-5692c-1	0	0.000000	N
+hsa-mir-5692c-2	0	0.000000	N
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+hsa-mir-5694	0	0.000000	N
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+hsa-mir-5696	0	0.000000	N
+hsa-mir-5697	0	0.000000	N
+hsa-mir-5698	2	1.497467	N
+hsa-mir-5699	1	0.748733	N
+hsa-mir-570	0	0.000000	N
+hsa-mir-5700	0	0.000000	N
+hsa-mir-5701-1	0	0.000000	N
+hsa-mir-5701-2	0	0.000000	N
+hsa-mir-5701-3	0	0.000000	N
+hsa-mir-5702	0	0.000000	N
+hsa-mir-5703	0	0.000000	N
+hsa-mir-5704	0	0.000000	N
+hsa-mir-5705	0	0.000000	N
+hsa-mir-5706	0	0.000000	N
+hsa-mir-5707	0	0.000000	N
+hsa-mir-5708	0	0.000000	N
+hsa-mir-571	0	0.000000	N
+hsa-mir-572	0	0.000000	N
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+hsa-mir-8485	0	0.000000	N
+hsa-mir-873	0	0.000000	N
+hsa-mir-874	21	15.723400	N
+hsa-mir-875	0	0.000000	N
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+hsa-mir-877	0	0.000000	N
+hsa-mir-885	1	0.748733	N
+hsa-mir-887	7	5.241133	N
+hsa-mir-888	0	0.000000	N
+hsa-mir-889	1	0.748733	N
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+hsa-mir-891a	0	0.000000	N
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+hsa-mir-892b	0	0.000000	N
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+hsa-mir-9-1	328	245.584532	N
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+hsa-mir-920	0	0.000000	N
+hsa-mir-921	0	0.000000	N
+hsa-mir-922	0	0.000000	N
+hsa-mir-924	0	0.000000	N
+hsa-mir-92a-1	2295	1718.342993	N
+hsa-mir-92a-2	1916	1434.573061	N
+hsa-mir-92b	64	47.918933	N
+hsa-mir-93	3440	2575.642657	N
+hsa-mir-933	0	0.000000	N
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+hsa-mir-9500	0	0.000000	N
+hsa-mir-96	14	10.482267	N
+hsa-mir-98	40	29.949333	N
+hsa-mir-99a	163	122.043533	N
+hsa-mir-99b	25076	18775.236993	N

data/gdc_data_organized/739cb132-51e9-41be-8064-311a13da0d74/CHEEP_p_TCGA_b120_121_SNP_N_GenomeWideSNP_6_E09_777698.grch38.seg.v2.txt

@@ -0,0 +1,387 @@
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+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	X	151125462	151126987	2	1.4309
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	X	151128083	155952689	2363	0.0262
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	2782397	6744645	845	-2.4848
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	6747321	7657598	428	-2.7748
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	7658027	9989140	1055	-3.0521
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	9989675	13483169	924	-2.7437
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	13489006	14021618	218	-2.2864
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	14059401	14833056	440	-2.9403
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	14834756	14842230	8	-5.9537
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	14842456	21814634	2374	-2.8518
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	21818876	21848641	14	-5.0706
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	21849246	26317011	142	-3.2406
+49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0	Y	26317379	56872112	167	-2.3335

data/gdc_data_organized/7455d832-ad66-40df-85d7-3a7051c4498d/TCGA-A2-A0ER-01A-11-A13C-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	0.45303
+AGID00111	913	sc-23957	Old	1433EPSILON	0.32376
+AGID00101	883	sc-1019	Old	1433ZETA	-0.28673
+AGID00001	2	9452	Old	4EBP1	-0.67599
+AGID00002	3	9456	Old	4EBP1_pS65	-0.16081
+AGID00003	6	9459	Old	4EBP1_pT37T46	0.35256
+AGID00443	8	9455	Old	4EBP1_pT70	-0.12341
+AGID00120	985	4937	Old	53BP1	-0.87757
+AGID00004	13	3661	Old	ACC_pS79	-0.69731
+AGID00005	14	1768-1/ab45174	Old	ACC1	-0.59227
+AGID00408	2372	3658	Set163	AceCS1	-0.365335504793036
+AGID00473	1182	5335	Old	ACETYLATUBULINLYS40	-1.8322
+AGID00404	2367	9189	Set163	ACSL1	-0.253815036086975
+AGID02144	2450	PA5-27081	Old	ACVRL1	0.17553
+AGID00186	1198	ab88574	Old	ADAR1	-0.66684
+AGID00146	1084	4691	Old	AKT	-0.3994
+AGID00028	230	9271	Old	AKT_pS473	0.62653
+AGID00170	1154	2965	Old	AKT_pT308	0.08058
+AGID00316	1800	3063	Set163	Akt2	-0.365019994732081
+AGID00347	2009	8599	Set163	Akt2_pS474	0.158274443012994
+AGID02215	2577	ab195377	Set163	ALKBH5	-0.713780206523191
+AGID00498	924	CA1030	Old	ALPHACATENIN	NA
+AGID00287	1630	ABC80	Set163	Ambra1_pS52	0.164229161014821
+AGID00236	1351	ab129081	Set163	AMPK-a2_pS345	0.0559599104453872
+AGID00006	39	2532	Old	AMPKALPHA	-0.47061
+AGID00007	40	2535	Old	AMPKALPHA_pT172	-0.52387
+AGID00193	1208	610066	Old	ANNEXIN1	0.63344
+AGID00166	1142	610668	Old	ANNEXINVII	0.19472
+AGID00371	756	1852-1/ab52615	Old	AR	0.6966
+AGID00194	1217	4432	Old	ARAF	-0.30611
+AGID02191	2507	PA5-39728	Old	ARAF_pS299	0.12241
+AGID00260	1053	sc-32761	Old	ARID1A	-0.042186
+AGID00264	1560	HPA029318	Old	ASNS	-0.75821
+AGID00276	1612	3415	Set163	Atg3	-0.115305059653978
+AGID00309	1775	13507	Set163	Atg4B	0.250274486681256
+AGID00310	1776	12994	Set163	Atg5	-0.626425087657123
+AGID00277	1613	8558	Set163	Atg7	-0.0673549965775861
+AGID00242	1363	2873	Old	ATM	-0.56
+AGID02142	2447	13050	Set163	ATM_pS1981	0.103949859707017
+AGID00217	1289	ab14748	Set163	ATP5A	0.4112143600433
+AGID02145	2451	PA5-43776	Set163	ATP5H	0.82977997979476
+AGID02150	2456	13934	Set163	ATR	0.148031968479629
+AGID00315	1795	ab178407	Set163	ATR_pS428	-0.37020124905085
+AGID00268	1569	ab97508	Set163	ATRX	-1.41468763434756
+AGID00391	2332	14475	Set163	Aurora-A	-0.407164996577586
+AGID00392	2333	2914	Set163	Aurora-ABC_pT288_pT232_pT198	0.0864250133344186
+AGID02195	2512	MA5-27890	Set163	Aurora-B	-0.0987213025617804
+AGID00215	1271	8661	Old	AXL	0.27354
+AGID02143	2449	8457	Set163	b-Actin	-0.0698552623301971
+AGID00179	1170	9565	Set163	b-Catenin_pT41_S45	0.377560008491053
+AGID00301	1725	14058	Set163	B7-H3	-0.436185911185092
+AGID00302	1726	14572	Set163	B7-H4	0.144789668710333
+AGID00008	63	9291	Old	BAD_pS112	0.0263
+AGID00009	71	1542-1/ab32371	Old	BAK	0.24116
+AGID00192	1207	sc-28383	Old	BAP1C4	-0.57208
+AGID00010	73	2772	Old	BAX	-0.70018
+AGID00433	80	M0887	Old	BCL2	0.64515
+AGID00219	1299	PAB8528	Old	BCL2A1	0.36198
+AGID00012	84	1018-1	Old	BCLXL	-0.49332
+AGID00377	87	sc-10086	Old	BECLIN	0.18186
+AGID00011	75	9562	Old	BETACATENIN	-0.73459
+AGID00013	88	1008-1/ab32060	Old	BID	0.49327
+AGID00180	90	1036-1/ab32158	Old	BIM	-0.045372
+AGID00221	1311	610978	Set163	BiP-GRP78	-0.2770105525422
+AGID00373	2194	07-507	Set163	BMK1-Erk5_pT218_Y220	-0.0602649629280868
+AGID00355	92	1647/ab33899	Old	BRAF	-0.75355
+AGID00014	94	2696	Old	BRAF_pS445	-0.30756
+AGID00445	761	9012	Old	BRCA2	0.14028
+AGID00266	1567	13440	Old	BRD4	-0.95935
+AGID00168	1146	2865	Set163	c-Abl_pY412	0.41799427145912
+AGID00278	1615	3130	Set163	c-IAP2	0.0943898946416321
+AGID00345	1990	5649	Old	CA9	NA
+AGID00265	1565	2862	Old	CABL	-0.015508
+AGID00429	2407	2679	Set163	Calnexin	-0.408635250061493
+AGID00176	1165	9496	Set163	Caspase-8-cleaved	0.341119921570398
+AGID00623	111	9665	Old	CASPASE3	-0.42982
+AGID00015	109	9491	Old	CASPASE7CLEAVEDD198	-0.35216
+AGID00118	951	9746	Old	CASPASE8	0.30349
+AGID00537	935	551246	Old	CASPASE9	NA
+AGID00016	114	3238	Old	CAVEOLIN1	1.5621
+AGID00358	2100	ab76000	Set163	CD134	0.450303565904962
+AGID00303	1737	826701	Set163	CD171	-0.087185019104869
+AGID00410	125	1632-1/ab78237	Old	CD20	0.26978
+AGID00220	1308	ab28340	Old	CD26	-0.13152
+AGID00191	1206	610467	Set163	CD29	-0.153175348834952
+AGID00017	127	M0823	Old	CD31	0.24421
+AGID00369	2174	ab108403	Set163	CD38	0.21680501423551
+AGID00359	2104	ab133616	Set163	CD4	-0.131696254343448
+AGID00411	1398	3570	Set163	CD44	0.016969882061011
+AGID00237	1352	M070101-2	Set163	CD45	-0.0350151618931806
+AGID00115	937	611016	Old	CD49B	0.48111
+AGID02171	2482	91882	Set163	CD86	0.116044992747948
+AGID00329	1873	4688	Set163	cdc25C	-0.339649984750762
+AGID00227	1332	4651	Set163	Cdc42	0.212954785081065
+AGID00422	2396	3387	Set163	Cdc6	0.0490348884293004
+AGID00501	1007	9112	Old	CDK1	-0.24944
+AGID00293	1658	ab32384	Set163	CDK1_pT14	-1.24191498929954
+AGID00314	1783	4539	Old	CDK1_pY15	-0.19835
+AGID00423	2397	8064	Set163	CDT1	0.45515955694037
+AGID02101	2348	15102	Set163	cGAS	-0.0154249920028146
+AGID00447	2410	13460	Set163	CHD1L	-0.567446826069471
+AGID00189	1203	2360	Old	CHK1	0.32838
+AGID00234	1348	ab79758	Old	CHK1_pS296	-0.026033
+AGID00107	903	2348	Old	CHK1_pS345	0.16651
+AGID00018	146	3440	Old	CHK2	-1.0643
+AGID00019	147	2197	Old	CHK2_pT68	0.32208
+AGID00527	2078	4952	Old	CIAP	-0.26656
+AGID00350	2018	3793	Set163	CIITA	0.164365006957465
+AGID00434	155	9164	Old	CJUN_pS73	0.44733
+AGID00020	157	1522-1/ab32363	Old	CKIT	1.6203
+AGID00400	852	NB100-91714	Old	CLAUDIN7	-0.28017
+AGID00466	726	3127	Old	CMET	0.45009
+AGID00079	727	3129	Old	CMET_pY1235	0.34296
+AGID00167	161	9402	Old	CMYC	1.0825
+AGID00292	1656	11130-1-AP	Old	COG3	-0.75865
+AGID00021	171	sc-20649	Old	COLLAGENVI	3.0721
+AGID00141	1069	459230	Old	COMPLEXIISUBUNIT30	NA
+AGID00267	1568	3512	Set163	Connexin-43	-0.0862252623301972
+AGID00269	1571	6434	Set163	Coup-TFII	0.116675004670079
+AGID00150	1116	4850	Set163	Cox-IV	-0.645945649522128
+AGID00195	1218	4842	Set163	Cox2	0.173935010700459
+AGID00188	803	05-739	Old	CRAF	-0.33598
+AGID00022	179	9427	Old	CRAF_pS338	0.30402
+AGID00023	181	9197	Set163	Creb	0.457043886138768
+AGID00393	2334	9198	Set163	CREB_pS133	0.265227140665817
+AGID00365	2155	4980	Set163	CSK	-0.0872050308883704
+AGID00367	2160	9201	Set163	CtIP	0.254909668710333
+AGID00536	2096	ab107198	Old	CTLA4	NA
+AGID00025	198	2936	Set163	Cyclin-D3	-0.222855111570699
+AGID00024	192	1495-1/ab32053	Old	CYCLINB1	-1.6938
+AGID00382	194	sc-718	Old	CYCLIND1	0.43764
+AGID00437	199	sc-25303	Old	CYCLINE1	-1.0762
+AGID00449	202	1142-1	Old	CYCLINE2	0.07504
+AGID00209	1257	ab110324	Set163	Cyclophilin-F	-0.600825281253113
+AGID00247	1379	ab48389	Set163	D-a-Tubulin	0.334079998509734
+AGID00308	1770	GTX10524	Set163	DAPK1_pS308	-0.0220550473159587
+AGID00304	1744	ab51601	Set163	DAPK2	0.272829782247825
+AGID00343	1980	6998	Set163	DDB-1	-0.43359506291177
+AGID00427	2402	5583	Set163	DDR1	-0.0830807645065426
+AGID00428	2403	SAB4504671	Set163	DDR1_pY513	0.0367049830438873
+AGID00532	1273	Bast Lab	Old	DIRAS3	0.37863
+AGID00104	891	ab76008	Old	DJ1	-0.0096178
+AGID02146	2452	4658	Set163	DM-Histone-H3	0.472089618491828
+AGID00386	1397	ab32521	Set163	DM-K9-Histone-H3	0.282759972828631
+AGID00352	2030	14649	Set163	DNA-Ligase-IV	-0.179390247037639
+AGID00407	2371	13609	Set163	DNA_POLG	-0.432395076636084
+AGID00399	2344	5032	Set163	DNMT1	-1.06933512889938
+AGID00409	2373	5391	Set163	DRP1	-0.713106564475931
+AGID00253	1406	5149	Old	DUSP4	1.2563
+AGID00334	1936	ab76310	Set163	DUSP6	-0.175855327832596
+AGID00116	940	3218	Old	DVL3	-0.66475
+AGID00211	1261	sc-251	Old	E2F1	NA
+AGID00148	1099	3195	Old	ECADHERIN	-0.28437
+AGID00135	1060	2332	Old	EEF2	-1.9453
+AGID00136	1061	3692	Old	EEF2K	-0.64844
+AGID00152	1120	2232	Old	EGFR	0.17435
+AGID00450	217	2234	Old	EGFR_pY1068	0.57869
+AGID00026	221	1124-1/ab32578	Old	EGFR_pY1173	0.48508
+AGID00078	722	9742	Old	EIF4E	-0.21992
+AGID00328	1871	ab76256	Set163	eIF4E_pS209	0.222704685822401
+AGID00154	1124	2498	Old	EIF4G	-0.74542
+AGID00027	228	9181	Set163	Elk1_pS383	0.225350008491053
+AGID00235	1350	M061329-2	Set163	EMA	0.122634576651739
+AGID00394	2337	3810	Set163	Enolase-1	-0.110680229258416
+AGID00395	2338	8171	Set163	Enolase-2	0.25459001403623
+AGID00196	1219	GTX629542	Old	ENY2	-0.87344
+AGID00438	1849	A302-024A	Set163	EphA2	0.258765006957465
+AGID00552	2422	6347	Set163	EphA2_pS897	0.43219501070046
+AGID00553	2423	12677	Set163	EphA2_pY588	0.046136510595959
+AGID00075	693	556347	Old	EPPK1	0.51579
+AGID00335	238	RM-9101	Old	ERALPHA	0.86677
+AGID00029	241	1091-1/ab32396	Old	ERALPHA_pS118	-0.20669
+AGID00240	247	MS-671	Old	ERCC1	0.019629
+AGID00239	1355	11331-1-AP	Old	ERCC5	-0.1825
+AGID00484	249	sc-154	Old	ERK2	-0.68446
+AGID00372	2193	3552	Set163	Erk5	-0.221344986665581
+AGID00405	2369	13826	Set163	ERRalpha	0.00568988206101145
+AGID00187	1200	A303-501A	Old	ETS1	0.58339
+AGID00511	2492	2593	Set163	EVI1	0.0313494022299584
+AGID00485	1284	4905	Old	EZH2	NA
+AGID00030	252	1700-1/ab40794	Set163	FAK	1.25549500210543
+AGID02151	2457	8556	Set163	FAK_pY397	0.478968398310756
+AGID00171	1156	3180	Old	FASN	-0.23678
+AGID00356	2085	500-P18/10775-082	Set163	FGF-basic	0.974060005267919
+AGID00031	262	1574-1/ab45688	Old	FIBRONECTIN	0.60886
+AGID00339	1959	4403	Set163	FN14	-0.235889988909645
+AGID02152	2458	20459	Old	FOXM1	-0.43196
+AGID00378	269	9467	Old	FOXO3A	0.29367
+AGID02197	2515	orb6051	Old	FOXO3A_pS318S321	-0.039157
+AGID02167	2475	PA5-64616	Set163	FRS2-alpha_pY196	0.373505015205916
+AGID02213	2575	ab124892	Set163	FTO	-0.419294990131317
+AGID02141	2446	12263	Old	G6PD	0.23899
+AGID00117	943	3239	Old	GAB2	-0.29647
+AGID00412	274	AM4300	Old	GAPDH	-3.0536
+AGID00086	764	558686	Old	GATA3	1.0533
+AGID00383	1578	4253	Old	GATA6	0.19871
+AGID00289	1634	12601-1-AP	Set163	GCLC	0.599349986137056
+AGID00305	1745	ab124827	Set163	GCLM	0.184145005848429
+AGID00212	1263	3305	Old	GCN5L2	-0.90883
+AGID00270	1579	3538	Set163	Gli1	-0.352705392711161
+AGID00263	1520	ab69838	Set163	Gli3	0.207473860977539
+AGID00548	2530	3660	Set163	Glucocorticoid-Receptor	0.0532100027725887
+AGID00387	1617	12793	Set163	Glutamate-D1-2	-0.321776126407189
+AGID00262	1491	ab156876	Set163	Glutaminase	0.0945849466536612
+AGID00319	1807	4275	Set163	Granzyme-B	0.529869910445387
+AGID00368	2169	ab183737	Set163	GRB7	-0.350065769713809
+AGID00396	2339	3593	Set163	Grp75	-0.410990058051075
+AGID00174	1163	9315	Set163	GSK-3B	-1.02588586758686
+AGID00502	1082	9336	Old	GSK3_pS9	-0.48946
+AGID00033	284	sc-7291	Old	GSK3ALPHABETA	-0.75771
+AGID00034	285	9331	Old	GSK3ALPHABETA_pS21S9	-0.42596
+AGID00129	1035	3886	Old	GYS	NA
+AGID00130	1036	3891	Old	GYS_pS641	NA
+AGID01354	1342	9718	Set163	H2AX_pS139	0.000754966546984822
+AGID00363	1409	MA1-2022	Set163	H2AX_pS140	-0.173800054897255
+AGID00131	1038	MS-325-P1	Old	HER2	-0.088123
+AGID00142	299	06-229	Old	HER2_pY1248	0.3454
+AGID00110	911	sc-285	Old	HER3	1.3312
+AGID00080	728	4791	Old	HER3_pY1289	0.29993
+AGID00103	890	2573	Old	HEREGULIN	0.10469
+AGID00271	1582	11988	Set163	HES1	-0.119075226355863
+AGID00397	2340	2024	Set163	Hexokinase-I	-0.183115238070048
+AGID00442	1023	2867	Set163	Hexokinase-II	-2.27515654971191
+AGID00419	1402	610958	Old	HIF1ALPHA	NA
+AGID00205	1250	ab1791	Set163	Histone-H3	0.64094483311616
+AGID00398	2341	3377	Set163	Histone-H3_pS10	0.774149877728842
+AGID00332	1901	ab128959	Set163	HLA-DQA1	0.0546636359127815
+AGID00333	1902	14832-1-AP	Set163	HMHA1	-0.470735487949564
+AGID00035	321	2402	Set163	HSP27	-0.169790048797561
+AGID00036	323	2401	Set163	HSP27_pS82	-0.179375000736469
+AGID00320	1808	12165	Set163	HSP60	-0.211910212103025
+AGID00037	325	4872	Old	HSP70	3.0016
+AGID00366	2158	86630	Set163	IDO	0.0214195162179829
+AGID00197	1221	3024	Old	IGF1R_pY1135Y1136	0.4595
+AGID00038	335	3922	Old	IGFBP2	-0.16849
+AGID00090	793	611504	Set163	IGFBP3	-0.420575314177599
+AGID00039	336	3027	Set163	IGFRb	-0.175604987220099
+AGID00336	1949	12153	Set163	IL-6	0.347029682434645
+AGID02221	2583	57145	Set163	IMP3	0.00486486659516566
+AGID02153	2459	14543	Old	INPP4B	1.3194
+AGID00272	1586	3025	Set163	IR-b	-0.537115028393041
+AGID00519	2519	4302	Set163	IRF-3	-0.541239742135214
+AGID00520	2520	4947	Set163	IRF-3_pS396	-0.368895530578105
+AGID00223	1316	sc-497	Old	IRF1	-0.39085
+AGID00092	802	06-248	Old	IRS1	0.35857
+AGID00040	371	4502	Set163	IRS2	0.0231145449056052
+AGID00250	1394	sc-13157	Old	JAB1	0.35433
+AGID00256	1413	ab109536	Set163	Jagged1	0.248680536162786
+AGID00177	1166	3230	Old	JAK2	-0.60295
+AGID00758	377	4671	Old	JNK_pT183Y185	0.56641
+AGID02136	2439	PA5-28262	Old	JNK2	-0.14549
+AGID00307	1757	ab10484	Set163	KAP1	-0.646630500556175
+AGID00528	904	2180	Old	KU80	-0.8232
+AGID00375	2237	HPA028732	Set163	LAD1	-0.336179985270622
+AGID00290	1643	IHC-00439	Set163	Lasu1	-0.516750013862943
+AGID00279	1618	4108	Set163	LC3A-B	-0.234300259237028
+AGID00042	397	2752	Old	LCK	0.25286
+AGID00119	976	3582	Old	LDHA	NA
+AGID00533	977	ab85319	Old	LDHB	NA
+AGID00529	1477	3050	Old	LKB1	0.13206
+AGID00244	1367	2568	Set163	LRP6_pS1490	-0.230210011887474
+AGID00439	2424	2796	Set163	Lyn	0.15592995120244
+AGID02154	2460	4370	Old	MAPK_pT202Y204	0.92002
+AGID00198	1222	5453	Set163	Mcl-1	-0.609776040041094
+AGID00288	1633	AB3314P	Set163	MCT4	-0.593135124463236
+AGID00175	1164	3521	Set163	MDM2_pS166	0.00487001181815938
+AGID00044	417	1235-1/ab32576	Old	MEK1	0.053015
+AGID00143	1076	9154	Old	MEK1_pS217S221	-0.65238
+AGID00201	1243	9125	Set163	MEK2	-0.115065463204215
+AGID00361	2118	ab51061	Set163	MelanA	0.209229988112526
+AGID00362	2119	ab137078	Set163	Melanoma-gp100	0.528104908530568
+AGID00337	1951	12711	Set163	MERIT40	-0.685960625738522
+AGID00338	1952	12110	Set163	MERIT40_pS29	0.0287850138196218
+AGID02212	2574	ab195352	Set163	METTL3	-0.440184994151571
+AGID00225	1323	sc-20121	Set163	MIF	-0.0663949885370787
+AGID00137	1062	WH0054206M1	Old	MIG6	-0.1505
+AGID00403	2117	ab20663	Set163	MITF	0.137709621557167
+AGID00503	1067	ab3298	Old	MITOCHONDRIA	NA
+AGID00321	1809	14739	Set163	Mitofusin-1	-0.311193781807686
+AGID00322	1810	11925	Set163	Mitofusin-2	-0.0633051157988969
+AGID00389	2324	3515	Set163	MLH1	-0.670875133404834
+AGID00312	1780	14993	Set163	MLKL	1.14651485737631
+AGID00402	2359	MAB3328	Set163	MMP14	-0.984625050296491
+AGID00045	435	4022	Set163	MMP2	1.27684215063846
+AGID00122	1005	2195	Set163	Mnk1	-0.61474620313854
+AGID00331	1899	sc-377312	Set163	MR1	0.529729825500205
+AGID00273	1589	ab103319	Set163	MRAP	0.117925015067287
+AGID00530	440	4847	Old	MRE11	0.43853
+AGID00390	905	2850	Old	MSH2	-0.76202
+AGID00138	1063	22030002	Old	MSH6	-0.92086
+AGID00299	1675	ab76148	Set163	MSI2	-0.0810099848547341
+AGID00232	1344	ab14705	Set163	MTCO1	-1.56365666976491
+AGID00046	444	2983	Old	MTOR	-0.66252
+AGID00047	446	2971	Old	MTOR_pS2448	0.17373
+AGID00204	1247	H00009788-M01A	Set163	MTSS1	-0.103940164379846
+AGID00401	1139	21370002	Old	MYH11	2.8888
+AGID00291	1647	3403	Old	MYOSINIIA	-0.16694
+AGID00173	1160	5026	Old	MYOSINIIA_pS1943	0.062345
+AGID00318	1803	4282	Set163	Myt1	-0.322465244031114
+AGID00216	1274	5795-1/ab129189	Old	NAPSINA	NA
+AGID00418	452	4061	Old	NCADHERIN	0.62657
+AGID00156	1126	3217	Old	NDRG1_pT346	1.0019
+AGID02133	2436	PA5-45913	Set163	NDUFB4	0.331915012779901
+AGID00134	1046	22710002	Old	NF2	-1.0772
+AGID00048	457	3033	Old	NFKBP65_pS536	-0.26583
+AGID02155	2461	3608	Old	NOTCH1	0.17869
+AGID00340	1969	4147	Set163	Notch1-cleaved	0.197779764884491
+AGID00087	767	sc-5593	Set163	Notch3	0.210434987133456
+AGID00258	1420	3187	Set163	NQO1	-0.430120174499795
+AGID00162	1136	sc-31	Old	NRAS	0.53619
+AGID00257	1419	12721	Old	NRF2	NA
+AGID00297	1669	2750	Set163	Oct-4	0.433970001420952
+AGID00420	466	1712-1/ab40803	Old	P16INK4A	-0.67556
+AGID00384	470	sc-6246	Old	P21	-0.033011
+AGID00105	897	1591-1/ab32034	Old	P27	0.41792
+AGID00096	842	AF1555	Old	P27_pT157	0.044806
+AGID00099	878	ab64949	Old	P27_pT198	-0.18738
+AGID00181	1175	9228	Set163	p38-a	-0.112256101384589
+AGID00098	479	9211	Old	P38_pT180Y182	0.45391
+AGID00049	478	9212	Old	P38MAPK	-0.36777
+AGID00151	1119	4695	Set163	p44-42-MAPK	0
+AGID00050	481	9282	Old	P53	0.20324
+AGID00490	1187	610833	Old	P62LCKLIGAND	-0.8092
+AGID00545	1415	ab53039	Old	P63	NA
+AGID00052	494	9205	Old	P70S6K_pT389	1.2236
+AGID00051	493	1494-1/ab32529	Old	P70S6K1	-1.0025
+AGID00085	759	9347	Old	P90RSK	-0.22671
+AGID00531	770	9344	Old	P90RSK_pT359S363	0.24132
+AGID00182	1178	9346	Set163	p90RSK_pT573	0.1647348884293
+AGID00053	499	612024	Old	PAI1	-0.010512
+AGID00224	1322	HPA035895	Set163	PAICS	-0.926404986665581
+AGID00323	1811	2602	Set163	PAK1	0.472314584414986
+AGID02199	2517	PA5-69540	Set163	PAK4	-0.0860301013034573
+AGID00245	1370	4336-BPC-100	Set163	PAR	-0.706975447053889
+AGID00374	2209	66564	Set163	PARG	0.422604737669803
+AGID00370	1372	sc-7150	Old	PARP1	-1.8007
+AGID00468	501	9546	Old	PARPCLEAVED	0.64058
+AGID00274	1591	ab53715	Set163	Patched	0.133834976389674
+AGID00513	2486	60433	Set163	PAX6	0.248834908530568
+AGID00441	1621	9857	Set163	PAX8	-0.0470813710100223
+AGID00054	504	2542	Old	PAXILLIN	-0.64464
+AGID00055	509	2130	Old	PCADHERIN	-0.18931
+AGID00248	511	ab29	Old	PCNA	0.026344
+AGID00413	2095	43248	Old	PDCD1	NA
+AGID00094	816	600-401-965	Old	PDCD4	0.58336
+AGID00385	1225	3169	Set163	PDGFRB	0.600290001420952
+AGID00210	1258	ab110332	Set163	PDH	0.14610885464391
+AGID00324	1817	3205	Set163	PDHA1	0.191339335999765
+AGID00280	1622	3820	Set163	PDHK1	-0.00212499532992096
+AGID00056	515	3062	Old	PDK1	0.16403
+AGID00057	516	3061	Old	PDK1_pS241	-0.36441
+AGID00300	1234	sc-19090	Old	PDL1	-0.12869
+AGID00124	1017	2780	Old	PEA15	-0.25839
+AGID00125	1018	44-836G	Old	PEA15_pS116	0.59243
+AGID00440	2429	3192	Set163	PERK	-0.752715602388133
+AGID02207	2569	ab192876	Set163	PGM1	-0.150255639956699
+AGID00281	1623	13428	Set163	PHGDH	-0.292485611676303
+AGID00425	2399	22789-1-AP	Set163	PHLPP	0.129455012156069
+AGID00226	1330	sc-376412	Set163	PI3K-p110-b	0.31921500071914
+AGID00093	808	4255	Old	PI3KP110ALPHA	-0.27081
+AGID00058	523	06-195	Old	PI3KP85	-0.34838
+AGID00296	1667	5675	Set163	PKA-a	-0.253240131143442
+AGID00259	1426	9375	Set163	PKC-a-b-II_pT638_T641	0.101995007997186
+AGID00172	529	05-154	Old	PKCALPHA	-0.30878
+AGID00460	530	06-822	Old	PKCALPHA_pS657	0.0037431
+AGID00114	932	07-875	Old	PKCDELTA_pS664	0.092755
+AGID00163	1137	9371	Old	PKCPANBETAII_pS660	-0.41813
+AGID00126	1025	4053	Old	PKM2	NA
+AGID00512	2489	5690	Set163	PLC-gamma1	-0.93967582223945
+AGID02138	2441	GTX133463	Set163	PLC-gamma2_pY759	0.382679845462843
+AGID00084	754	4513	Set163	PLK1	-0.920305056465501
+AGID00203	1246	22510002	Set163	PMS2	-0.566624992002814
+AGID00207	1254	ab14734	Set163	Porin	0.22888501423551
+AGID00381	549	1483-1/ab32085	Old	PR	-0.069462
+AGID00081	738	AHO1031	Set163	PRAS40	-0.0283849849327134
+AGID00082	739	44-1100G	Old	PRAS40_pT246	0.0252
+AGID00424	2398	OAAF05458	Set163	PRC1_pT481	0.195704989074267
+AGID00492	1205	HPA007730	Old	PRDX1	-0.03923
+AGID00190	1204	ab102739	Old	PREX1	-0.097079
+AGID00061	566	9552	Old	PTEN	-0.56634
+AGID00364	2154	ab76942	Set163	PTPN12	-0.331475147337092
+AGID00218	1290	4976	Set163	Puma	-0.231549984716105
+AGID00200	1242	SAB2900066	Old	PYGB	NA
+AGID00535	1494	ab61013	Old	PYGL	NA
+AGID00202	1245	H00005837-M10	Old	PYGM	NA
+AGID00275	1607	3291	Set163	Pyk2_pY402	0.211949429574607
+AGID00145	1083	3539	Old	RAB11	0.83259
+AGID00169	1150	4314	Old	RAB25	-0.44465
+AGID00342	1979	24555	Set163	Rad23A	-0.553450071359501
+AGID00261	987	05-525	Old	RAD50	-0.011712
+AGID00360	579	NA71	Old	RAD51	0.13636
+AGID00158	1128	2280	Old	RAPTOR	-0.36664
+AGID00059	552	9309	Old	RB	0.42338
+AGID00060	557	9308	Old	RB_pS807S811	-0.65181
+AGID00164	1138	21390002	Old	RBM15	-1.8211
+AGID00547	735	3221	Old	RET_pY905	NA
+AGID00097	847	MAB3426	Set163	Rheb	0.217034919759552
+AGID00159	1129	2114	Old	RICTOR	0.6152
+AGID00160	1130	3806	Old	RICTOR_pT1135	0.65554
+AGID00282	1624	4926	Set163	RIP	-0.271690029632042
+AGID00283	1625	13526	Set163	RIP3	0.0544242612698591
+AGID00416	1368	2208	Set163	RPA32	-0.159060015907728
+AGID00246	1375	A300-245A	Set163	RPA32_pS4_S8	-0.141206088977261
+AGID00341	1978	3388	Set163	RRM1	-0.0303302065231913
+AGID00344	1981	PA5-27856	Set163	RRM2	-0.213891646917063
+AGID00554	2425	8408	Set163	RSK1	-0.873022839406227
+AGID00353	2031	13018	Set163	S100A4	0.298950004054911
+AGID00330	1874	2317	Old	S6	-0.80297
+AGID00062	600	2211	Old	S6_pS235S236	1.3803
+AGID00063	601	2215	Old	S6_pS240S244	1.2305
+AGID00157	1127	sc-58420	Old	SCD1	-0.11303
+AGID00230	1339	11998	Set163	SDHA	0.374595006957465
+AGID00294	1039	ab69836	Old	SETD2	0.34284
+AGID00161	1131	32-4500	Old	SF2	0.17045
+AGID02179	2495	3534	Set163	SFRP1	0.670468978024045
+AGID00431	2411	12103	Set163	SGK1	0.351554271459119
+AGID00430	2409	8156	Set163	SGK3	0.0463899678379713
+AGID02168	2476	bs-3413R	Old	SHC_pY317	0.38322
+AGID00376	2241	3397	Set163	SHP2	0.331894755968886
+AGID00183	1180	3751	Old	SHP2_pY542	0.53452
+AGID02208	2570	ab8120	Set163	SIRP-alpha	-0.425920654330835
+AGID00222	1133	sc-99002	Old	SLC1A5	-0.95418
+AGID00255	1411	sc-136891	Set163	Slfn11	0.874434919759551
+AGID00064	610	2954	Old	SMAC	-1.0076
+AGID00113	922	1649-1/ab33902	Old	SMAD1	0.11887
+AGID00091	796	1735-1/ab40854	Old	SMAD3	-0.13288
+AGID02160	2467	46535	Old	SMAD4	0.21619
+AGID00065	616	3895	Old	SNAIL	0.4319
+AGID00325	1818	4266	Set163	SOD1	0.207993523068495
+AGID00380	1328	13141	Set163	SOD2	0.342949782247826
+AGID00298	1670	2748	Set163	Sox2	0.232844801716595
+AGID00066	621	05-184	Old	SRC	-0.037392
+AGID02157	2463	6943	Old	SRC_pY416	0.15159
+AGID00068	626	2105	Old	SRC_pY527	0.645
+AGID00185	1197	4904	Set163	Stat3	-0.94153815607874
+AGID00388	637	9131	Old	STAT3_pY705	0.87006
+AGID00069	638	1289-1/ab32043	Old	STAT5ALPHA	-0.26915
+AGID00077	718	1972-1/ab52630	Old	STATHMIN	0.62494
+AGID00357	2099	13647	Set163	STING	0.138790014417461
+AGID00128	1033	sc-1240	Old	SYK	-0.99298
+AGID00070	646	05-348	Set163	Tau	-0.156680013862943
+AGID00327	777	2149	Old	TAZ	0.35258
+AGID00228	1333	7495	Set163	TFAM	-0.382831316112799
+AGID00165	1140	22500002	Old	TFRC	-1.4188
+AGID00149	1107	S1711/ab137573	Old	TIGAR	0.12811
+AGID00109	908	MS-224-P1	Old	TRANSGLUTAMINASE	-0.51463
+AGID00406	2370	612344	Set163	TRAP1	-1.71665499200281
+AGID00559	2537	PA5-34561	Set163	TRIM24	-0.260592238309702
+AGID00306	1756	ab167154	Set163	TRIM25	-1.09700070337098
+AGID00426	2400	PA5-52193	Set163	TRIP13	-0.147769985270623
+AGID00155	1125	4906	Old	TSC1	-0.47877
+AGID00144	1081	2044-1/ab76013	Old	TTF1	NA
+AGID00071	670	1613-1/ab32554	Old	TUBERIN	-0.83323
+AGID02194	2511	ab109403	Old	TUBERIN_pT1462	0.37461
+AGID00417	1842	ab173300	Set163	TUFM	-0.376935016956113
+AGID00238	1353	sc-81417	Set163	Twist	0.198345008967591
+AGID00436	1080	5585	Set163	Tyro3	0.541864469421895
+AGID00295	1662	5546	Set163	U-Histone-H2B	0.844119835620154
+AGID00214	1270	HPA005651	Set163	UBAC1	-0.105760126672643
+AGID00351	2020	sc-136145	Set163	UBQLN4	0.129334997738607
+AGID00213	1267	sc-271268	Set163	UGT1A	0.223410011090355
+AGID00284	1626	6888	Set163	ULK1_pS757	0.0854471006019641
+AGID00208	1256	MS304/ab14745	Set163	UQCRC2	0.191084985123329
+AGID00313	1781	13115	Set163	UVRAG	0.0515850046700793
+AGID00073	678	3112	Set163	VASP	-0.538825355974367
+AGID00184	1181	2502	Set163	VAV1	-0.634570883069322
+AGID00074	688	2479	Old	VEGFR2	0.51276
+AGID00421	2394	68547	Set163	VHL	-0.217404991032409
+AGID00231	1343	SAB4200080	Set163	Vinculin	0.150504592108919
+AGID00317	1802	4936	Set163	Wee1	-0.660081196648953
+AGID00354	2058	4910	Set163	Wee1_pS642	0.315984761929952
+AGID00285	1627	12124	Set163	WIPI1	0.508774989074268
+AGID00286	1628	8567	Set163	WIPI2	-0.0293299847161048
+AGID02214	2576	ab195380	Set163	WTAP	-0.789675698388988
+AGID00133	1044	sc-32136	Old	XBP1	0.34588
+AGID00076	699	2042	Set163	XIAP	-0.152165521913767
+AGID00241	1359	sc-56813	Set163	XPA	1.05419001403623
+AGID00349	1354	ab3299	Set163	XPF	0.312952384783279
+AGID02137	2440	PA5-29359	Old	XRCC1	-0.20511
+AGID00088	780	sc-15407	Old	YAP	0.11096
+AGID00089	782	4911	Old	YAP_pS127	0.016956
+AGID00504	700	17250002	Old	YB1	0.14586
+AGID00095	835	2900	Old	YB1_pS102	0.14862
+AGID02217	2579	ab220163	Set163	YTHDF2	-1.18279001590773
+AGID02210	2572	ab220161	Set163	YTHDF3	-1.53590503608697
+AGID00326	1828	2705	Set163	ZAP-70	-0.10626215079996
+AGID00432	2244	sc-25388	Set163	ZEB1	0.397353284071526

data/gdc_data_organized/7455d832-ad66-40df-85d7-3a7051c4498d/TCGA-A2-A0ER-01A-21D-A891-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt

@@ -0,0 +1,647 @@
+GDC_Aliquot_ID	Chromosome	Start	End	Num_Probes	Segment_Mean
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	17001	12780000	11790	-0.007197
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12780001	12839000	56	-0.958306
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12839001	12845000	6	-29.912569
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12845001	12848000	3	-29.918598
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12848001	12851000	3	-9.343451
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12851001	12866000	15	-29.898561
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12870001	12884000	6	-4.452430
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12884001	12889000	4	-6.784844
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	12900001	16603000	3288	-0.002884
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	16604001	16637000	33	-0.401707
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	16637001	16909000	133	0.047748
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	16909001	89008000	71501	0.009054
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	89008001	89013000	5	-3.148980
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	89013001	122807000	30851	0.015371
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	122818001	122843000	4	-3.845762
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	122843001	123361000	57	-0.216300
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123372001	123391000	2	-3.205721
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123393001	123525000	18	-0.252532
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123525001	123532000	4	-0.526900
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123535001	123715000	24	-0.415519
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123720001	123721000	1	-5.243905
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	123742001	124569000	117	-0.063774
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	124570001	124592000	5	-2.630853
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	124597001	161569000	14328	0.009685
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	161570001	161596000	8	-1.080385
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	161597001	161650000	41	-0.948247
+TCGA-A2-A0ER-01A-21D-A891-36	chr1	161654001	248931000	86008	0.010929
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data/gdc_data_organized/7455d832-ad66-40df-85d7-3a7051c4498d/TCGA-A2-A0ER.A5D94D02-5423-4055-96E3-B5AA5799DC02.PDF

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data/gdc_data_organized/7455d832-ad66-40df-85d7-3a7051c4498d/TCGA-BRCA.49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0.ascat3.allelic_specific.seg.txt

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data/gdc_data_organized/7455d832-ad66-40df-85d7-3a7051c4498d/nationwidechildrens.org_biospecimen.TCGA-A2-A0ER.xml

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+<?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">81702D7C-687A-47B9-B708-95AF2E1D8567</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">56.91.0</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-A2-A0ER</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7455d832-ad66-40df-85d7-3a7051c4498d</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A2</shared:tissue_source_site>
+        <shared:patient_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A0ER</shared:patient_id>
+        <shared:gender cde="2200604" xsd_ver="1.8" procurement_status="Completed" owner="">FEMALE</shared:gender>
+        <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="">300</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="">true</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="">1862</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-A2-A0ER-01A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5c703f38-38a5-4543-a964-88cf1d5ba2f1</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="">11</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A13C</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="">22</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">3</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-A2-A0ER-01A-11-A13C-20</bio:shipment_portion_bcr_aliquot_barcode>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">7b71576b-d077-4e99-ae77-0c061517a5f9</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="">21</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">14</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</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-A2-A0ER-01A-21</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">01259988-0451-41e7-8296-8ffeb97e6e8e</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="">2.14</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-A2-A0ER-01A-21D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7123284f-de08-4aed-84ed-d3d7e06f3de9</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="">A032</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21D-A032-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">07020b38-e5f4-4add-9054-cbeb50e75c9d</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099049442</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="">A033</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21D-A033-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5f6f450e-14e3-4ae3-b608-523a05e98603</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="">2.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.30</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099050498</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="">A036</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21D-A036-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">49f8fe03-b923-4bb7-b042-6cb4d6f6e2b0</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099049346</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="">A044</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21D-A044-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f77791c7-7522-46d3-83ce-8b350dd60263</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="">1.60</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100478881</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="">A045</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21D-A045-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d29e391a-fde4-447e-8c66-ce36e0809adc</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="">1.07</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.34</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100478305</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="">0.13</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2.00</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-A2-A0ER-01A-21R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b62ed09a-bf68-4f85-8011-83a0de75e98d</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="">A034</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21R-A034-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9c8e0865-894b-4a0b-83e4-c3e7a40e871b</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.13</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.47</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099051842</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="">A035</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21R-A035-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">7be8a73c-700e-47c6-bd8c-9a8f3cf4fc48</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.13</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.60</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099053378</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="">9.20</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-A2-A0ER-01A-21W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">BBDB79FE-7663-49F7-8B36-FF00C2ED1127</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="">A050</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21W-A050-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">31ed187e-9bfe-4ca3-8cbb-10c1e0184331</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100470817</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="">A051</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21W-A051-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">c68660ef-dff8-43c0-ac17-ae33edada3a3</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100470913</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: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="">X</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G X (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-A2-A0ER-01A-21X</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F1F26C62-D610-4620-9B3D-A9798978748C</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="">A048</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21X-A048-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f6bd684d-ceb6-4ce7-93e7-486fa19b866a</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100472545</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="">A049</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-21X-A049-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">27189e1d-8638-4c6f-b448-eb2eb832293b</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100472257</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 X</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="">BOTTOM</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="">34</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">1</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="">6</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</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-A2-A0ER-01A-02-MSB</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">cf3ea42a-aeda-47d6-ab60-a6d0f4b83170</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-02-MSB.cf3ea42a-aeda-47d6-ab60-a6d0f4b83170.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="">80</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">3</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="">17</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="">2</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-A2-A0ER-01A-02-TSB</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fc92d268-4fa2-4784-9639-ee1ace7797d3</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0ER-01A-02-TSB.fc92d268-4fa2-4784-9639-ee1ace7797d3.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="">A5D94D02-5423-4055-96E3-B5AA5799DC02</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-A2-A0ER.A5D94D02-5423-4055-96E3-B5AA5799DC02.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="">18123C1B-A0CC-4957-9373-5FFAB985C2E8</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="">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="">1862</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-A2-A0ER-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">3b39c9c9-9252-4346-bc65-407f900bec40</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="">07</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">05</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">8505ca0a-5575-4112-bfc5-71e84980ace1</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="">0.15</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.83</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-A2-A0ER-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">1cef398b-34ff-409c-ab57-c7fae2a1a202</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="">A031</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01D-A031-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6f135ce8-14aa-411b-ad6a-4da4034cc38c</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="">2.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.30</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099052418</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="">A037</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="">14</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">07</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01D-A037-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">fd06c6b2-ad15-4091-a06e-109534d99c01</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="">12</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099050690</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="">A046</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01D-A046-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0e1acf08-6cfb-4393-84e8-808364169255</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="">1.60</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100491073</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="">A047</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01D-A047-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">e1e7fbae-8c50-463d-ad30-fedf8d22a5d3</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="">1.07</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.34</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100491649</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="">Pre-extracted DNA received by TSS</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-A2-A0ER-10A-01W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">40DDC389-D962-44D6-867C-9FDD9491CEAD</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="">A053</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01W-A053-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">94ce0ac7-204e-4c79-9176-1d153a00f3f4</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100482337</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="">A055</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01W-A055-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2bc2fdaf-fb2f-4bfd-9e20-e20edff6633a</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100485313</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: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="">X</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G X (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-A2-A0ER-10A-01X</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">45E0B08D-0E11-4881-800B-10EA162F4FE6</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="">A052</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01X-A052-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">aedb795f-19ba-475e-85e9-ca80ada20ba2</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100480609</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="">A054</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="">09</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-A2-A0ER-10A-01X-A054-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">93024580-5de8-45e2-90d7-b37e5b70ddda</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="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100480801</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 X</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>

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