From af53ee0b6574665d537139a4b47d1dc565fb5870 Mon Sep 17 00:00:00 2001 From: "Matthew A. Wyczalkowski" Date: Tue, 19 Apr 2022 15:11:04 -0500 Subject: [PATCH] Adding CPTAC3 AML Somatic CNV cases * Six cases were found to have "excess zero" condition, which suggests corrupt data (suspected WES / WGS swap) These cases are, C3L-01295 C3L-01696 C3L-02132 C3L-03308 C3L-03491 C3L-03497 and these are excluded from this upload * Working dir: /cache1/fs1/home1/Active/home/m.wyczalkowski/Projects/CPTAC3/submit/20220419.CPTAC3_AML_CNV --- .../WGS_CNV_Somatic.DCC_analysis_summary.dat | 58 +++++++++++++++++++ 1 file changed, 58 insertions(+) diff --git a/DCC_Analysis_Summary/WGS_CNV_Somatic.DCC_analysis_summary.dat b/DCC_Analysis_Summary/WGS_CNV_Somatic.DCC_analysis_summary.dat index 0aa0f25..339271a 100644 --- a/DCC_Analysis_Summary/WGS_CNV_Somatic.DCC_analysis_summary.dat +++ b/DCC_Analysis_Summary/WGS_CNV_Somatic.DCC_analysis_summary.dat @@ -315,6 +315,22 @@ C3L-00449 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCE C3L-00449 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.1_UCEC_rerun_20210608/C3L-00449.C3L-00449.gene_level.log2.seg.gz 294930 TSV ab22ad1413a60d096c18f7ea4d8ccbfa C3L-00449.WGS.T.hg38 79b0a390-f6b2-4eb1-a905-90f69c0104e5 C3L-00449.WGS.N.hg38 688ef886-6324-46d5-89ee-11be2c3c3b8b SEG C3L-00449 UCEC WGS_CNV_Somatic v2.5 20210803 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.5_UCEC_rerun.v2.5_20210803/C3L-00449.WGS.T.hg38.case.cnv.gz 2454 CNV 3d0b2d032b3fef9a7f627972bee24d34 C3L-00449.WGS.T.hg38 79b0a390-f6b2-4eb1-a905-90f69c0104e5 C3L-00449.WGS.N.hg38 688ef886-6324-46d5-89ee-11be2c3c3b8b ac0439e9-e789-4638-b1d2-bad7e35e7a8c C3L-00449 UCEC WGS_CNV_Somatic v2.5 20210803 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.5_UCEC_rerun.v2.5_20210803/C3L-00449.WGS.T.hg38.case.gene_level.log2.seg.gz 295186 SEG 4cacd445edd3fbe246607a2eda4f89cb C3L-00449.WGS.T.hg38 79b0a390-f6b2-4eb1-a905-90f69c0104e5 C3L-00449.WGS.N.hg38 688ef886-6324-46d5-89ee-11be2c3c3b8b ac0439e9-e789-4638-b1d2-bad7e35e7a8c +C3L-00453 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00453.case.cnv.gz 5543 CNV 70cd623c1af29dfc1871436fdc747705 C3L-00453.WGS.Tbm.hg38 71e80e61-93ae-47a3-8528-d9f0b5ef6d84 C3L-00453.WGS.Nbc.hg38 81c4a2f0-222a-44be-94be-54b1c8095f79 01e1fca3-62a9-40be-b908-a8f0ce2ff40e +C3L-00453 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00453.case.gene_level.log2.seg.gz 296040 SEG 77a99217abbf4e0431c1d747799fc101 C3L-00453.WGS.Tbm.hg38 71e80e61-93ae-47a3-8528-d9f0b5ef6d84 C3L-00453.WGS.Nbc.hg38 81c4a2f0-222a-44be-94be-54b1c8095f79 01e1fca3-62a9-40be-b908-a8f0ce2ff40e +C3L-00455 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00455.case.cnv.gz 2198 CNV 5181d59dbefdb8fad258c4b983745f01 C3L-00455.WGS.Tbm.hg38 2d456244-3a1d-4fe1-965b-91b3f50e85fb C3L-00455.WGS.Nbc.hg38 1210073b-32e5-4acf-a539-58eceab95e18 0480e3f2-e324-44c6-b9aa-12c7d42cadd0 +C3L-00455 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00455.case.gene_level.log2.seg.gz 295046 SEG ac8e504168d6c01e5b755dab010e2f20 C3L-00455.WGS.Tbm.hg38 2d456244-3a1d-4fe1-965b-91b3f50e85fb C3L-00455.WGS.Nbc.hg38 1210073b-32e5-4acf-a539-58eceab95e18 0480e3f2-e324-44c6-b9aa-12c7d42cadd0 +C3L-00457 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00457.case.cnv.gz 3541 CNV 588e920f0a9df43751c4979f1ee8b004 C3L-00457.WGS.Tbm.hg38 34d5947e-1b54-49b7-a505-93fe5511f669 C3L-00457.WGS.Nbc.ADNA_n6qRDW.hg38 4786fe3f-0a54-4f8d-9a37-30116422748d 48e38831-daeb-4ca8-883c-90884414fdce +C3L-00457 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00457.case.gene_level.log2.seg.gz 296047 SEG 26d758eb2d072864d5035ea85f2453d7 C3L-00457.WGS.Tbm.hg38 34d5947e-1b54-49b7-a505-93fe5511f669 C3L-00457.WGS.Nbc.ADNA_n6qRDW.hg38 4786fe3f-0a54-4f8d-9a37-30116422748d 48e38831-daeb-4ca8-883c-90884414fdce +C3L-00458 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00458.case.cnv.gz 4785 CNV 6f15404f130172d3be5cf9b493d27d4e C3L-00458.WGS.Tbm.hg38 32532239-85f8-42a4-8fa8-d7c513bc436a C3L-00458.WGS.Nbc.hg38 32240eef-9d20-4d0d-b2c1-05600a4784d7 3a8d1c01-8e9a-49d2-b92d-e6e87494f3ee +C3L-00458 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00458.case.gene_level.log2.seg.gz 296694 SEG d9446d71f84d4869cd36f076019af8d2 C3L-00458.WGS.Tbm.hg38 32532239-85f8-42a4-8fa8-d7c513bc436a C3L-00458.WGS.Nbc.hg38 32240eef-9d20-4d0d-b2c1-05600a4784d7 3a8d1c01-8e9a-49d2-b92d-e6e87494f3ee +C3L-00459 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00459.case.cnv.gz 5684 CNV b28a30dc711d0d7329336a336a0776ed C3L-00459.WGS.Tbm.hg38 09c32a71-39bd-49ab-8394-fdce4d6d0dd6 C3L-00459.WGS.Nbc.hg38 8e608d7f-19fc-4ab3-86fa-61e96ce384bb a79eb88a-3070-4ab3-b685-0c736a69481f +C3L-00459 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00459.case.gene_level.log2.seg.gz 297670 SEG f498850f8f4804762e1c2b33af8e09c4 C3L-00459.WGS.Tbm.hg38 09c32a71-39bd-49ab-8394-fdce4d6d0dd6 C3L-00459.WGS.Nbc.hg38 8e608d7f-19fc-4ab3-86fa-61e96ce384bb a79eb88a-3070-4ab3-b685-0c736a69481f +C3L-00460 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00460.case.cnv.gz 10860 CNV 77670935cd4b0249ecdfc47b21e19f74 C3L-00460.WGS.Tbm.hg38 fc54e75e-cafa-4100-90ee-f3aa654040dc C3L-00460.WGS.Nbc.hg38 51d9eed2-d9fc-44cd-9bc3-dbe4a78c417e 07b08660-0581-49b5-8437-e49672796c2c +C3L-00460 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00460.case.gene_level.log2.seg.gz 299446 SEG ae4f5a028fc99a909c2e4da96cdbf9d2 C3L-00460.WGS.Tbm.hg38 fc54e75e-cafa-4100-90ee-f3aa654040dc C3L-00460.WGS.Nbc.hg38 51d9eed2-d9fc-44cd-9bc3-dbe4a78c417e 07b08660-0581-49b5-8437-e49672796c2c +C3L-00461 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00461.case.cnv.gz 18862 CNV 05e7acbe1a8e93a58772ede6d5023886 C3L-00461.WGS.Tbm.hg38 db50286b-5a53-4a87-90a5-d4d825b89908 C3L-00461.WGS.Nbc.ADNA_n6PVk5.hg38 fd05b6b1-0ac6-4bf9-8489-4a6590c46cb5 acd62802-66eb-41a7-b509-0b8337f84ee7 +C3L-00461 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00461.case.gene_level.log2.seg.gz 301692 SEG 0b9452fcb0f4b816f04ae97ac128bbbc C3L-00461.WGS.Tbm.hg38 db50286b-5a53-4a87-90a5-d4d825b89908 C3L-00461.WGS.Nbc.ADNA_n6PVk5.hg38 fd05b6b1-0ac6-4bf9-8489-4a6590c46cb5 acd62802-66eb-41a7-b509-0b8337f84ee7 +C3L-00465 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00465.case.cnv.gz 2280 CNV 7641c622bcedb0e423b817fd745818b0 C3L-00465.WGS.Tbm.hg38 895e1970-8cb8-4ee6-a9da-666945f7527f C3L-00465.WGS.Nbc.hg38 888bd4f0-4d76-40f5-be2b-30f4a3f60e30 5cd4503c-9ff9-47e8-a523-1ddf193fb232 +C3L-00465 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00465.case.gene_level.log2.seg.gz 294854 SEG 93e8f8296d3a0bbcf67cf340444e65ea C3L-00465.WGS.Tbm.hg38 895e1970-8cb8-4ee6-a9da-666945f7527f C3L-00465.WGS.Nbc.hg38 888bd4f0-4d76-40f5-be2b-30f4a3f60e30 5cd4503c-9ff9-47e8-a523-1ddf193fb232 C3L-00503 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-00503.cnv.gz 4439 TSV ccf570775358681bfcd62806a113bcc6 C3L-00503.WGS.T.hg38 bc77e602-348c-4658-870a-f7b48274f3fa C3L-00503.WGS.N.hg38 a8b7beaf-0808-4e2b-99ad-4981c2fca5c7 CNV C3L-00503 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-00503.gene_level.log2.seg.gz 296177 TSV bbc5d71b0f39fa9172c2e43bd792f509 C3L-00503.WGS.T.hg38 bc77e602-348c-4658-870a-f7b48274f3fa C3L-00503.WGS.N.hg38 a8b7beaf-0808-4e2b-99ad-4981c2fca5c7 SEG C3L-00506 GBM WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-00506.cnv.gz 4921 TSV cce78af00f56e59e5e778f581b843e69 C3L-00506.WGS.T.hg38 4b1e84dc-a6a0-435b-b260-b776ea156a72 C3L-00506.WGS.N.hg38 eccb55ab-88b8-404d-bd51-a31496496a73 CNV @@ -417,6 +433,8 @@ C3L-00610 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CN C3L-00610 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-00610.gene_level.log2.seg.gz 295422 TSV 5a03389771a95b447f90961594a0bda2 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3L-00610 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-00610.WGS.T.hg38.case.cnv.gz 2721 CNV bbea8bb6374170194ab788f1d79f403a C3L-00610.WGS.T.hg38 ae06cc02-91b4-420a-b04f-1e76954d1de0 C3L-00610.WGS.N.hg38 cf1f561b-bcc6-4e40-b09b-d57b1b9b6c70 504d1233-f7d1-4b6d-8640-4d48c89b4129 C3L-00610 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-00610.WGS.T.hg38.case.gene_level.log2.seg.gz 295301 SEG 771449ff91657daa285340683114e8fd C3L-00610.WGS.T.hg38 ae06cc02-91b4-420a-b04f-1e76954d1de0 C3L-00610.WGS.N.hg38 cf1f561b-bcc6-4e40-b09b-d57b1b9b6c70 504d1233-f7d1-4b6d-8640-4d48c89b4129 +C3L-00614 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00614.case.cnv.gz 11538 CNV 01273d54d35f0c2e7e8188507883b419 C3L-00614.WGS.Tpb.hg38 bf93279a-b4a9-4d9c-b217-b5d5fc9db592 C3L-00614.WGS.Nbc.hg38 a8b1aad9-afac-494b-a513-91889fe8be96 f07de7ac-5120-4a31-9762-e016babfa859 +C3L-00614 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00614.case.gene_level.log2.seg.gz 299178 SEG 746c5183a7c3e91d9b0375dc06762a94 C3L-00614.WGS.Tpb.hg38 bf93279a-b4a9-4d9c-b217-b5d5fc9db592 C3L-00614.WGS.Nbc.hg38 a8b1aad9-afac-494b-a513-91889fe8be96 f07de7ac-5120-4a31-9762-e016babfa859 C3L-00622 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-00622.cnv.gz 3389 TSV c569bf606bff55184835f6bcafcf2905 C3L-00622.WGS.T.hg38 086ec943-b53a-4ccd-9594-bb20d5535f9b C3L-00622.WGS.N.hg38 286cd6a8-1673-4386-90d5-551bf89e2b6f CNV C3L-00622 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-00622.gene_level.log2.seg.gz 296192 TSV 6c51209b6fcc19154c5458bfa7bf77b8 C3L-00622.WGS.T.hg38 086ec943-b53a-4ccd-9594-bb20d5535f9b C3L-00622.WGS.N.hg38 286cd6a8-1673-4386-90d5-551bf89e2b6f SEG C3L-00622 PDA WGS_CNV_Somatic v2.5 20211117 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_06.v2.5-update_20211117/C3L-00622.case.cnv.gz 3307 CNV 0c20caa839724262d24173c0c891cb3b C3L-00622.WGS.T.hg38 086ec943-b53a-4ccd-9594-bb20d5535f9b C3L-00622.WGS.N.hg38 286cd6a8-1673-4386-90d5-551bf89e2b6f ee7c5ad1-282e-45cc-8230-1d437d561ae7 @@ -503,6 +521,10 @@ C3L-00800 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CN C3L-00800 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-00800.gene_level.log2.seg.gz 309721 TSV 512c8420e0a3412f2ef02a4b6416a7c4 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3L-00800 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-00800.WGS.T.hg38.case.cnv.gz 1904 CNV 8bdfb4e4c8769368095278e0a30c840c C3L-00800.WGS.T.hg38 04349d60-1055-4080-8835-8635d3734b15 C3L-00800.WGS.N.hg38 0beccacb-bc6e-4118-af83-5c807c3aae8f 0aa56cec-04dc-4678-bb42-de17d4bfe6e6 C3L-00800 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-00800.WGS.T.hg38.case.gene_level.log2.seg.gz 294494 SEG dc37c6ef204570ab95fcd5c8bdf10a57 C3L-00800.WGS.T.hg38 04349d60-1055-4080-8835-8635d3734b15 C3L-00800.WGS.N.hg38 0beccacb-bc6e-4118-af83-5c807c3aae8f 0aa56cec-04dc-4678-bb42-de17d4bfe6e6 +C3L-00807 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00807.case.cnv.gz 4781 CNV c5e7b7437aeb7026e2c69ce4763be80c C3L-00807.WGS.Tpb.hg38 5301fffb-fbba-437b-8ad1-18d5252a1f8e C3L-00807.WGS.Nbc.hg38 701200bb-b981-401f-8c0f-60733974b257 d33a74e8-3e16-4dd9-8c1a-11dd442a5d06 +C3L-00807 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00807.case.gene_level.log2.seg.gz 295919 SEG e0b67c007286107414b2b58a8c5f5223 C3L-00807.WGS.Tpb.hg38 5301fffb-fbba-437b-8ad1-18d5252a1f8e C3L-00807.WGS.Nbc.hg38 701200bb-b981-401f-8c0f-60733974b257 d33a74e8-3e16-4dd9-8c1a-11dd442a5d06 +C3L-00810 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00810.case.cnv.gz 2514 CNV 1b05368712c042f74c21b5666402ed2d C3L-00810.WGS.Tpb.hg38 a0fa533d-0c42-4be2-aeab-5fe971c6bd0b C3L-00810.WGS.Nbc.hg38 0fad2924-7c7b-4dfe-92b0-bde428f1823a 7710eebc-176d-4d7d-b6e6-cf23508198fe +C3L-00810 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-00810.case.gene_level.log2.seg.gz 294953 SEG 01928ada0ece453074ca52b986552490 C3L-00810.WGS.Tpb.hg38 a0fa533d-0c42-4be2-aeab-5fe971c6bd0b C3L-00810.WGS.Nbc.hg38 0fad2924-7c7b-4dfe-92b0-bde428f1823a 7710eebc-176d-4d7d-b6e6-cf23508198fe C3L-00812 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-00812.cnv 3566 TSV dae92d1bd6d0e41140c0c686e244e355 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 CNV C3L-00812 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-00812.gene_level.log2.seg.gz 294795 TSV f30f3dc89434d4f7ff97ce3732266ab4 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3L-00812 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-00812.WGS.T.hg38.case.cnv.gz 1857 CNV 094fcebdae5666a2845f2bef55e4a04f C3L-00812.WGS.T.hg38 74f2bc12-d0cf-4af4-a8be-759799d519a7 C3L-00812.WGS.N.hg38 7ee344ee-0ee5-450d-a98f-59ea2d43bfed ce8da8b9-35a6-4f1b-8950-545de0fa71bf @@ -847,6 +869,12 @@ C3L-01160 PDA WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_W C3L-01160 PDA WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_Y3.b1_20200525/C3L-01160.gene_level.log2.seg.gz 296615 TSV e9cbeec641c0a85a132c06f092dc5aaf C3L-01160.WGS.T.hg38 05cb8a97-9225-4a2c-b9e4-048375f3478d C3L-01160.WGS.N.hg38 159ed349-6664-4f63-a807-2c0ec490012b SEG C3L-01160 PDA WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_SomaticCNV.batch_1021_20211015/C3L-01160.case.cnv.gz 5066 CNV b2bb24fdcbd11d2fd8e5940d6c9f743a C3L-01160.WGS.T.CORE_ERRmwz0.hg38.core 1000b82e-99a4-4743-90b4-625b6dc12984 C3L-01160.WGS.N.hg38 159ed349-6664-4f63-a807-2c0ec490012b 8d3727e3-8392-4e3e-b9cf-326ab91666c8 C3L-01160 PDA WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_SomaticCNV.batch_1021_20211015/C3L-01160.case.gene_level.log2.seg.gz 296868 SEG 29af9e260f01a3029830c0207e4ff097 C3L-01160.WGS.T.CORE_ERRmwz0.hg38.core 1000b82e-99a4-4743-90b4-625b6dc12984 C3L-01160.WGS.N.hg38 159ed349-6664-4f63-a807-2c0ec490012b 8d3727e3-8392-4e3e-b9cf-326ab91666c8 +C3L-01202 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01202.case.cnv.gz 4833 CNV 99e59abd49c2b68d007629b180d3d6d0 C3L-01202.WGS.Tbm.hg38 c4e035b2-76ee-4d67-843d-1f18990e3bb1 C3L-01202.WGS.Nbc.hg38 dc06e74b-457a-466a-96eb-bae0b949c050 e2f2f58f-105a-458f-b732-d7cc743e63de +C3L-01202 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01202.case.gene_level.log2.seg.gz 296012 SEG cbb17bb274a25759251a67f601967c79 C3L-01202.WGS.Tbm.hg38 c4e035b2-76ee-4d67-843d-1f18990e3bb1 C3L-01202.WGS.Nbc.hg38 dc06e74b-457a-466a-96eb-bae0b949c050 e2f2f58f-105a-458f-b732-d7cc743e63de +C3L-01205 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01205.case.cnv.gz 289647 CNV aeeb1aea1c9cb96c27f888b161e5dff8 C3L-01205.WGS.Tbm.hg38 fadcb315-1cbc-498d-8835-f6828b2d3ee0 C3L-01205.WGS.Nbc.hg38 78af2650-07ba-4252-853f-22a0e4f310d5 dd00287f-d9e3-48d1-a5f0-e9b4c4905696 +C3L-01205 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01205.case.gene_level.log2.seg.gz 331214 SEG e37c63ff7b46ae15118fbf37954cf14a C3L-01205.WGS.Tbm.hg38 fadcb315-1cbc-498d-8835-f6828b2d3ee0 C3L-01205.WGS.Nbc.hg38 78af2650-07ba-4252-853f-22a0e4f310d5 dd00287f-d9e3-48d1-a5f0-e9b4c4905696 +C3L-01210 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01210.case.cnv.gz 9845 CNV df11fc7666b42bbd51b836df02735917 C3L-01210.WGS.Tbm.hg38 3a8f7279-b2aa-4861-b5b2-6e49b38b6d78 C3L-01210.WGS.Nbc.hg38 158d759d-6b3c-4dc3-a3d7-59930a885d0a 5493eeb2-7cdf-4ace-bf61-9893ab3ebbf4 +C3L-01210 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01210.case.gene_level.log2.seg.gz 299046 SEG b37f1c501ad4fda4c7b888a39b7f90dd C3L-01210.WGS.Tbm.hg38 3a8f7279-b2aa-4861-b5b2-6e49b38b6d78 C3L-01210.WGS.Nbc.hg38 158d759d-6b3c-4dc3-a3d7-59930a885d0a 5493eeb2-7cdf-4ace-bf61-9893ab3ebbf4 C3L-01232 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-01232.WGS.T.hg38.case.cnv.gz 9076 CNV b2592726bb45735a82de53abf8a7cbef C3L-01232.WGS.T.hg38 7794e4ec-ebc2-40ca-9e51-a0a869ecc2be C3L-01232.WGS.N.hg38 c7777e0c-2447-4d47-aa47-e65bed9a8e47 86e0838b-6037-4af2-96df-c92bbef9c70f C3L-01232 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-01232.WGS.T.hg38.case.gene_level.log2.seg.gz 298800 SEG aaad91b157c9ecc2c68b6318468e74f4 C3L-01232.WGS.T.hg38 7794e4ec-ebc2-40ca-9e51-a0a869ecc2be C3L-01232.WGS.N.hg38 c7777e0c-2447-4d47-aa47-e65bed9a8e47 86e0838b-6037-4af2-96df-c92bbef9c70f C3L-01237 HNSCC WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/HNSCC/CPTAC3_HNSCC_WGS_CNV_Somatic_v2.0_Y3.b1_20200525/C3L-01237.cnv.gz 11860 TSV 6da7d37c1340d2238d1c86ca1e9c1d87 C3L-01237.WGS.T.hg38 4ac05268-23c5-4dd9-933f-37598dccc518 C3L-01237.WGS.N.hg38 41d7d80d-8a51-4bd3-a74d-774a81f7d260 CNV @@ -945,6 +973,10 @@ C3L-01288 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CN C3L-01288 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-01288.gene_level.log2.seg.gz 295573 TSV 9e46b45974fec975b7273b0bec0106f9 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3L-01288 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-01288.WGS.T.hg38.case.cnv.gz 5997 CNV 99899d4d962d41e68c638ce149f08308 C3L-01288.WGS.T.hg38 8c9e2f29-7b5b-44bd-8573-cbe28288cc8a C3L-01288.WGS.N.hg38 96d483cc-1a1f-458b-a88f-6e118f623f95 f48b6ef9-bf0c-4be4-a7af-9e71c5e371d3 C3L-01288 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-01288.WGS.T.hg38.case.gene_level.log2.seg.gz 297341 SEG 67981b8d04034ee1c46420ba44092302 C3L-01288.WGS.T.hg38 8c9e2f29-7b5b-44bd-8573-cbe28288cc8a C3L-01288.WGS.N.hg38 96d483cc-1a1f-458b-a88f-6e118f623f95 f48b6ef9-bf0c-4be4-a7af-9e71c5e371d3 +C3L-01291 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01291.case.cnv.gz 2419 CNV 467b9be8d9689769434cfeaa8d9d2683 C3L-01291.WGS.Tbm.hg38 1a5442a8-1e85-42b4-912f-93073a8b589a C3L-01291.WGS.Nbc.hg38 64af057d-dddd-4424-910c-d04e4aa2254e adf4f6b4-d3ba-4165-972f-01f9a3228814 +C3L-01291 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01291.case.gene_level.log2.seg.gz 295129 SEG 3414bfcaf58627cf7b00cc1ee1325128 C3L-01291.WGS.Tbm.hg38 1a5442a8-1e85-42b4-912f-93073a8b589a C3L-01291.WGS.Nbc.hg38 64af057d-dddd-4424-910c-d04e4aa2254e adf4f6b4-d3ba-4165-972f-01f9a3228814 +C3L-01296 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01296.case.cnv.gz 18246 CNV ae52ad04db87432106134d404670e95a C3L-01296.WGS.Tbm.hg38 2f18abf7-fc76-485c-ae37-838137ae7ab1 C3L-01296.WGS.Nbc.hg38 6119f941-dd13-4396-b18f-fcd7301ec242 643d4868-b0a1-4c02-bb67-84698f98092b +C3L-01296 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01296.case.gene_level.log2.seg.gz 303993 SEG 68dc2585c79a974ea21f5a15651e2a1f C3L-01296.WGS.Tbm.hg38 2f18abf7-fc76-485c-ae37-838137ae7ab1 C3L-01296.WGS.Nbc.hg38 6119f941-dd13-4396-b18f-fcd7301ec242 643d4868-b0a1-4c02-bb67-84698f98092b C3L-01302 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-01302.cnv 18995 TSV 2d501525bf0123e7e94d5f0efcf5e9f0 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 CNV C3L-01302 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3L-01302.gene_level.log2.seg.gz 298979 TSV 2d44dd5a7d4c758bd7a31a2e355e6c97 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3L-01302 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-01302.WGS.T.hg38.case.cnv.gz 2773 CNV 1e17c034c812d4ca6cdd16fd5902db71 C3L-01302.WGS.T.hg38 d3ab66da-9f01-46c2-8219-22706f867ad2 C3L-01302.WGS.N.hg38 f692e57d-ea3f-4774-b5ab-659e80fd1158 e7cff4da-2119-4ce7-8619-528f111eb81c @@ -1151,6 +1183,8 @@ C3L-01689 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_W C3L-01689 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-01689.gene_level.log2.seg.gz 296110 TSV da34586064c11ddd23d821f859bd126e C3L-01689.WGS.T.hg38 7e8efdd4-7fad-4e46-aa74-5e1bf4b2f149 C3L-01689.WGS.N.hg38 e39d2edb-7a85-49c1-bafd-9ed460b73941 SEG C3L-01689 PDA WGS_CNV_Somatic v2.5 20211117 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_06.v2.5-update_20211117/C3L-01689.case.cnv.gz 3452 CNV 3a22680968e46016c157570e5d601db4 C3L-01689.WGS.T.DEEP_v6DZXg.hg38 7e8efdd4-7fad-4e46-aa74-5e1bf4b2f149 C3L-01689.WGS.N.hg38 e39d2edb-7a85-49c1-bafd-9ed460b73941 f414feb8-7283-4aee-92f8-89682999f898 C3L-01689 PDA WGS_CNV_Somatic v2.5 20211117 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_06.v2.5-update_20211117/C3L-01689.case.gene_level.log2.seg.gz 296289 SEG 5a4ed22de7c78194d326413de66d0bf4 C3L-01689.WGS.T.DEEP_v6DZXg.hg38 7e8efdd4-7fad-4e46-aa74-5e1bf4b2f149 C3L-01689.WGS.N.hg38 e39d2edb-7a85-49c1-bafd-9ed460b73941 f414feb8-7283-4aee-92f8-89682999f898 +C3L-01700 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01700.case.cnv.gz 1808 CNV 89741054533c0c2b22406f3191cc262d C3L-01700.WGS.Tbm.hg38 b0dc159d-ba72-46f7-a292-b64202b41de3 C3L-01700.WGS.Nbc.hg38 c9ca3855-56ab-43b4-94ba-b9be6a3bba97 2be5d7ce-0452-4380-988d-b9560a48c2c9 +C3L-01700 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-01700.case.gene_level.log2.seg.gz 294838 SEG a79571d54bc15f7b2261fc163540a323 C3L-01700.WGS.Tbm.hg38 b0dc159d-ba72-46f7-a292-b64202b41de3 C3L-01700.WGS.Nbc.hg38 c9ca3855-56ab-43b4-94ba-b9be6a3bba97 2be5d7ce-0452-4380-988d-b9560a48c2c9 C3L-01702 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-01702.cnv.gz 1864 TSV 8cde595edb33cf8b62bcc38f65ad73e1 C3L-01702.WGS.T.hg38 07e5550b-cc74-4209-a752-5ca156d2362a C3L-01702.WGS.N.hg38 f10fc8b4-5c83-4b4a-a27c-4f42bb53aff5 CNV C3L-01702 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-01702.gene_level.log2.seg.gz 294464 TSV b34dbf9b0f06689f756e0acc87a365b0 C3L-01702.WGS.T.hg38 07e5550b-cc74-4209-a752-5ca156d2362a C3L-01702.WGS.N.hg38 f10fc8b4-5c83-4b4a-a27c-4f42bb53aff5 SEG C3L-01703 PDA WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-01703.cnv.gz 4459 TSV 2098220d1cffe70dc19d605ddc9734f9 C3L-01703.WGS.T.hg38 e4b8c2ab-d38f-4be2-b18b-f49825caa583 C3L-01703.WGS.N.hg38 430334ce-61c4-44bd-86e4-30a9b853a35f CNV @@ -1359,6 +1393,8 @@ C3L-02130 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSC C3L-02130 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-02130.gene_level.log2.seg.gz 298699 TSV bb71b15c33be1d20a66378fa1dce6cc8 C3L-02130.WGS.T.hg38 6d9c3c11-0d28-481a-9392-86755de63ad3 C3L-02130.WGS.N.hg38 8490c690-dac7-4a72-b2bf-1991fbe05c36 SEG C3L-02130 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-02130.WGS.T.hg38.case.cnv.gz 9408 CNV 1b509cce612535f20ceac279d33dcce7 C3L-02130.WGS.T.hg38 6d9c3c11-0d28-481a-9392-86755de63ad3 C3L-02130.WGS.N.hg38 8490c690-dac7-4a72-b2bf-1991fbe05c36 419825de-4971-437c-a357-17144b20a63b C3L-02130 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-02130.WGS.T.hg38.case.gene_level.log2.seg.gz 298725 SEG ff43636478d00ea9e844f69a5418e138 C3L-02130.WGS.T.hg38 6d9c3c11-0d28-481a-9392-86755de63ad3 C3L-02130.WGS.N.hg38 8490c690-dac7-4a72-b2bf-1991fbe05c36 419825de-4971-437c-a357-17144b20a63b +C3L-02135 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-02135.case.cnv.gz 8914 CNV 6231bfb389bca70f5529b7d6d0fb9e1e C3L-02135.WGS.Tbm.hg38 2acdb97f-754a-4cb9-acb6-f113aa9ae369 C3L-02135.WGS.Nbc.hg38 c9d4d913-31bd-4903-9df4-f09fdb1303f4 848e6efc-1479-4e40-b76f-05e0e182bda6 +C3L-02135 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-02135.case.gene_level.log2.seg.gz 297117 SEG 9f4dee50d62f70238ff47b06a7093557 C3L-02135.WGS.Tbm.hg38 2acdb97f-754a-4cb9-acb6-f113aa9ae369 C3L-02135.WGS.Nbc.hg38 c9d4d913-31bd-4903-9df4-f09fdb1303f4 848e6efc-1479-4e40-b76f-05e0e182bda6 C3L-02163 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-02163.cnv.gz 15532 TSV 7d352b751ccfad876ff5918873eda5f3 C3L-02163.WGS.T.hg38 b08c1b94-78fd-455d-84f9-dd84d222979c C3L-02163.WGS.N.hg38 b3e28b59-bc29-4464-8d3d-205a7ead299c CNV C3L-02163 LSCC WGS_CNV_Somatic v2.0 20191121 Y3 /CPTAC3.Y2_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.0_WGS_CNV.20191121_20191121/C3L-02163.gene_level.log2.seg.gz 302301 TSV a67b9f31c553970184a3958b87b4d6fb C3L-02163.WGS.T.hg38 b08c1b94-78fd-455d-84f9-dd84d222979c C3L-02163.WGS.N.hg38 b3e28b59-bc29-4464-8d3d-205a7ead299c SEG C3L-02163 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-02163.WGS.T.hg38.case.cnv.gz 15400 CNV 50476e72d37229b1e38d79072bc81397 C3L-02163.WGS.T.hg38 b08c1b94-78fd-455d-84f9-dd84d222979c C3L-02163.WGS.N.hg38 b3e28b59-bc29-4464-8d3d-205a7ead299c c12d357d-a14b-4477-b147-86b6471d2639 @@ -1935,6 +1971,10 @@ C3L-03467 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCE C3L-03467 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.1_UCEC_rerun_20210608/C3L-03467.C3L-03467.gene_level.log2.seg.gz 310834 TSV 664a33635fa3757d23f9382bf0aed69f C3L-03467.WGS.T.hg38 6dbae026-e720-4d69-b088-32bdd1f26988 C3L-03467.WGS.N.hg38 e3de90da-a5bc-4515-9d79-3f6cc188dffd SEG C3L-03467 UCEC WGS_CNV_Somatic v2.5 20210803 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.5_UCEC_rerun.v2.5_20210803/C3L-03467.WGS.T.hg38.case.cnv.gz 26825 CNV e2579d50cdf956407ec6de5b008f8db2 C3L-03467.WGS.T.hg38 6dbae026-e720-4d69-b088-32bdd1f26988 C3L-03467.WGS.N.hg38 e3de90da-a5bc-4515-9d79-3f6cc188dffd 4dad3974-fac9-4684-9a0b-40272e9ad7f2 C3L-03467 UCEC WGS_CNV_Somatic v2.5 20210803 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.5_UCEC_rerun.v2.5_20210803/C3L-03467.WGS.T.hg38.case.gene_level.log2.seg.gz 308335 SEG e5256d3c4b140b737b65f3d45cb876cb C3L-03467.WGS.T.hg38 6dbae026-e720-4d69-b088-32bdd1f26988 C3L-03467.WGS.N.hg38 e3de90da-a5bc-4515-9d79-3f6cc188dffd 4dad3974-fac9-4684-9a0b-40272e9ad7f2 +C3L-03493 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-03493.case.cnv.gz 3224 CNV 7f92d0eaf07465ee16dbd6f33b0fe807 C3L-03493.WGS.Tbm.hg38 690c7e00-d487-4d12-973f-7a0fa1e94eb4 C3L-03493.WGS.Nbc.hg38 a76f4c04-d156-48ae-a49e-59200fbe2315 4c2768b1-3de1-4013-bbda-0a55d3c2434a +C3L-03493 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-03493.case.gene_level.log2.seg.gz 295190 SEG 10e7e0a55852e5e113110766238f8d87 C3L-03493.WGS.Tbm.hg38 690c7e00-d487-4d12-973f-7a0fa1e94eb4 C3L-03493.WGS.Nbc.hg38 a76f4c04-d156-48ae-a49e-59200fbe2315 4c2768b1-3de1-4013-bbda-0a55d3c2434a +C3L-03496 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-03496.case.cnv.gz 3580 CNV a0f829c2181c8d2e4c31b1692aa2770d C3L-03496.WGS.Tbm.hg38 3b7cb468-6327-4090-a75e-d332304d6a51 C3L-03496.WGS.Nbc.hg38 e28d6175-4ee7-497c-a49d-712b85f10815 70eea684-c233-42b4-afc2-053e436c2d98 +C3L-03496 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-03496.case.gene_level.log2.seg.gz 295009 SEG 00ae58614640c7516f8892b81b59ea7f C3L-03496.WGS.Tbm.hg38 3b7cb468-6327-4090-a75e-d332304d6a51 C3L-03496.WGS.Nbc.hg38 e28d6175-4ee7-497c-a49d-712b85f10815 70eea684-c233-42b4-afc2-053e436c2d98 C3L-03589 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.1_UCEC_rerun_20210608/C3L-03589.C3L-03589.cnv.gz 3124 TSV 39074d85a253056f5c87c98473992b9e C3L-03589.WGS.T.hg38 558d49c6-bca4-415d-b337-421423306c9c C3L-03589.WGS.N.hg38 bd6b2826-154e-4b74-a395-7fadc4650c7c CNV C3L-03589 UCEC WGS_CNV_Somatic v2.1 20210608 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.1_UCEC_rerun_20210608/C3L-03589.C3L-03589.gene_level.log2.seg.gz 295807 TSV a84fbcf742ea247dde619c9aa0817042 C3L-03589.WGS.T.hg38 558d49c6-bca4-415d-b337-421423306c9c C3L-03589.WGS.N.hg38 bd6b2826-154e-4b74-a395-7fadc4650c7c SEG C3L-03589 UCEC WGS_CNV_Somatic v2.5 20210803 Y3 /CPTAC3.Y3_WashU/UCEC/CPTAC3_UCEC_WGS_CNV_Somatic_v2.5_UCEC_rerun.v2.5_20210803/C3L-03589.WGS.T.hg38.case.cnv.gz 4108 CNV 7f1fc1774bc77255b9d5abe31c2a8c7a C3L-03589.WGS.T.hg38 558d49c6-bca4-415d-b337-421423306c9c C3L-03589.WGS.N.hg38 bd6b2826-154e-4b74-a395-7fadc4650c7c 1c956a09-5cb9-495f-a0e5-2ca89d3e502a @@ -2099,6 +2139,16 @@ C3L-04213 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_W C3L-04213 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04213.WGS.T.hg38.case.gene_level.log2.seg.gz 299934 SEG eef12ef589133eb1174237c2b602d396 C3L-04213.WGS.T.hg38 bb4472a3-b931-436b-a6f2-028f0e236229 C3L-04213.WGS.N.hg38 e4a20d36-782a-4b14-a985-15b48497ff4e 3f411521-bde6-4be6-939c-1f1535e10cfc C3L-04216 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04216.WGS.T.hg38.case.cnv.gz 9160 CNV 2e36a3c0eee770a0782ff4e9a2e1c569 C3L-04216.WGS.T.hg38 2fc1dd2f-7571-42ee-820c-68341519e90c C3L-04216.WGS.N.hg38 b20b030c-97f3-4a04-bac4-a3139d0bf489 df62d379-798c-4bad-890b-cc4636d3af41 C3L-04216 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04216.WGS.T.hg38.case.gene_level.log2.seg.gz 299290 SEG 603351d7c3e95d3272d7f946a90301ee C3L-04216.WGS.T.hg38 2fc1dd2f-7571-42ee-820c-68341519e90c C3L-04216.WGS.N.hg38 b20b030c-97f3-4a04-bac4-a3139d0bf489 df62d379-798c-4bad-890b-cc4636d3af41 +C3L-04241 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04241.case.cnv.gz 16065 CNV 5897b3bb43b5ea42cbab3030c184a35a C3L-04241.WGS.Tbm.hg38 f8b81384-68cc-4fac-93d9-1ce01c490390 C3L-04241.WGS.Nbc.hg38 70432235-b33a-4105-85d6-fc7d029cf3bd c4c368f7-b9f3-42af-a263-cc83931b1680 +C3L-04241 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04241.case.gene_level.log2.seg.gz 297510 SEG 4ae8fda6230857aadfba55dc73ae49a9 C3L-04241.WGS.Tbm.hg38 f8b81384-68cc-4fac-93d9-1ce01c490390 C3L-04241.WGS.Nbc.hg38 70432235-b33a-4105-85d6-fc7d029cf3bd c4c368f7-b9f3-42af-a263-cc83931b1680 +C3L-04242 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04242.case.cnv.gz 1939 CNV 2ea58b767473c6931a2cc88218b37fd1 C3L-04242.WGS.Tbm.hg38 95aa6faf-55af-4f6b-b01d-260bb025fec7 C3L-04242.WGS.Nbc.hg38 716018d2-bee2-43e5-9184-12dba57c70a6 ce5b9f09-0489-4bd8-b3dd-2af5e00c7f63 +C3L-04242 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04242.case.gene_level.log2.seg.gz 294540 SEG 5fcf9c126f33baad433d359169f6b066 C3L-04242.WGS.Tbm.hg38 95aa6faf-55af-4f6b-b01d-260bb025fec7 C3L-04242.WGS.Nbc.hg38 716018d2-bee2-43e5-9184-12dba57c70a6 ce5b9f09-0489-4bd8-b3dd-2af5e00c7f63 +C3L-04245 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04245.case.cnv.gz 11365 CNV 3f95cea6fc01944456fea9a38e091b62 C3L-04245.WGS.Tbm.hg38 419cf2fb-18cd-4a3e-90b5-2dd8ef7ac714 C3L-04245.WGS.Nbc.hg38 9a88768d-4af8-464d-ad42-eb8a9ae6b7af 2e8dc4e7-aafa-4acd-9c32-59608317204c +C3L-04245 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04245.case.gene_level.log2.seg.gz 297673 SEG 3d1f4ce80349b489cd8773dd80165f99 C3L-04245.WGS.Tbm.hg38 419cf2fb-18cd-4a3e-90b5-2dd8ef7ac714 C3L-04245.WGS.Nbc.hg38 9a88768d-4af8-464d-ad42-eb8a9ae6b7af 2e8dc4e7-aafa-4acd-9c32-59608317204c +C3L-04250 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04250.case.cnv.gz 5299 CNV d73b4cf1611ca46fda7d914a3496d63a C3L-04250.WGS.Tbm.hg38 539b6614-4424-4a68-8462-e3ab2867246e C3L-04250.WGS.Nbc.hg38 d83cbe0e-d6d0-4fc4-a410-dbad8697ba51 b10d1be6-4590-404a-a0f7-e49c288d8ddd +C3L-04250 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04250.case.gene_level.log2.seg.gz 295644 SEG 20651f650840e00a7a195e389da962fe C3L-04250.WGS.Tbm.hg38 539b6614-4424-4a68-8462-e3ab2867246e C3L-04250.WGS.Nbc.hg38 d83cbe0e-d6d0-4fc4-a410-dbad8697ba51 b10d1be6-4590-404a-a0f7-e49c288d8ddd +C3L-04265 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04265.case.cnv.gz 5640 CNV f78e839045c313a7c4e548eedac024a7 C3L-04265.WGS.Tbm.hg38 d4f7153b-3ba2-4a7e-8931-f9092ec7cc75 C3L-04265.WGS.Nbc.hg38 c86b8d05-0faf-48e5-a3db-53eefdfd6cd4 eb728aa7-fcc4-438b-80cd-5d5b9e397b31 +C3L-04265 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04265.case.gene_level.log2.seg.gz 296875 SEG 0aec5470d0fed7ca7260949fce3f37f2 C3L-04265.WGS.Tbm.hg38 d4f7153b-3ba2-4a7e-8931-f9092ec7cc75 C3L-04265.WGS.Nbc.hg38 c86b8d05-0faf-48e5-a3db-53eefdfd6cd4 eb728aa7-fcc4-438b-80cd-5d5b9e397b31 C3L-04336 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04336.WGS.T.hg38.case.cnv.gz 15066 CNV 81d467da1bcda4fdb23dc8c967f74180 C3L-04336.WGS.T.hg38 43875a6f-1286-408a-b54d-150b608901ac C3L-04336.WGS.N.hg38 aa673546-1c0d-4508-9ab6-dad3e4b748ae d1941d4c-2d98-4797-b4e1-348751755f2c C3L-04336 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04336.WGS.T.hg38.case.gene_level.log2.seg.gz 301797 SEG 1d921eab05ac680aef7694852b7048f7 C3L-04336.WGS.T.hg38 43875a6f-1286-408a-b54d-150b608901ac C3L-04336.WGS.N.hg38 aa673546-1c0d-4508-9ab6-dad3e4b748ae d1941d4c-2d98-4797-b4e1-348751755f2c C3L-04339 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04339.WGS.T.hg38.case.cnv.gz 10127 CNV 3c6978ea18dcd448b8aa1474b39d9a2e C3L-04339.WGS.T.hg38 3dfe2c34-88ce-41e9-b6ab-88aac3b761a2 C3L-04339.WGS.N.hg38 a78992b6-5d44-4e49-ba64-f99c06d9700e 0d79807a-d082-4c05-b8ca-5d43c8f5e4da @@ -2153,6 +2203,8 @@ C3L-04495 PDA WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_W C3L-04495 PDA WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.0_Y3.b1_20200525/C3L-04495.gene_level.log2.seg.gz 294371 TSV 3d6501df779cd0dce188c9070d5c3db3 C3L-04495.WGS.T.hg38 71ebf493-075b-4b39-9a05-0c17fc0b2e16 C3L-04495.WGS.N.hg38 6376abc5-61d7-45c7-950a-ef8321e16243 SEG C3L-04495 PDA WGS_CNV_Somatic v2.5 20211117 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_06.v2.5-update_20211117/C3L-04495.case.cnv.gz 1875 CNV c3f3229afd0266c5ecffad2b419de2de C3L-04495.WGS.T.hg38 71ebf493-075b-4b39-9a05-0c17fc0b2e16 C3L-04495.WGS.N.hg38 6376abc5-61d7-45c7-950a-ef8321e16243 80c9f71c-b110-4e8e-a6ab-52baae75f63b C3L-04495 PDA WGS_CNV_Somatic v2.5 20211117 Y3 /CPTAC3.Y3_WashU/PDA/CPTAC3_PDA_WGS_CNV_Somatic_v2.5_06.v2.5-update_20211117/C3L-04495.case.gene_level.log2.seg.gz 294336 SEG fdb371293323fd88a42d97d5e7c0ccbd C3L-04495.WGS.T.hg38 71ebf493-075b-4b39-9a05-0c17fc0b2e16 C3L-04495.WGS.N.hg38 6376abc5-61d7-45c7-950a-ef8321e16243 80c9f71c-b110-4e8e-a6ab-52baae75f63b +C3L-04505 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04505.case.cnv.gz 4608 CNV c1b3854fafd0b9324983186f7eb40c25 C3L-04505.WGS.Tbm.hg38 947c69cd-c679-42d6-865e-2697bb566e2d C3L-04505.WGS.Nbc.hg38 1f46e1d8-e1bc-47a3-95b5-841d6ef1fc43 fb243d2b-408e-4207-894c-00cd6cf6e5f2 +C3L-04505 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04505.case.gene_level.log2.seg.gz 295657 SEG 88ca0792c910ba6d21b251a0e81a26e9 C3L-04505.WGS.Tbm.hg38 947c69cd-c679-42d6-865e-2697bb566e2d C3L-04505.WGS.Nbc.hg38 1f46e1d8-e1bc-47a3-95b5-841d6ef1fc43 fb243d2b-408e-4207-894c-00cd6cf6e5f2 C3L-04537 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04537.WGS.T.hg38.case.cnv.gz 10842 CNV 990c344b41231f13221c3a99297e922e C3L-04537.WGS.T.hg38 14a5f061-baa1-413d-a21d-4a266877dc04 C3L-04537.WGS.N.hg38 90c46761-ce1b-43f8-ae6a-af25020697fe e3c76a39-2319-49c7-b3c7-58e1c82a4061 C3L-04537 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04537.WGS.T.hg38.case.gene_level.log2.seg.gz 299494 SEG a1a39ea5695c8c5ea776ad6d49e4de59 C3L-04537.WGS.T.hg38 14a5f061-baa1-413d-a21d-4a266877dc04 C3L-04537.WGS.N.hg38 90c46761-ce1b-43f8-ae6a-af25020697fe e3c76a39-2319-49c7-b3c7-58e1c82a4061 C3L-04539 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04539.WGS.T.hg38.case.cnv.gz 20798 CNV de6c41ec028c32dd339063f8397522af C3L-04539.WGS.T.hg38 340ee94a-a5d8-4417-b332-3d171f38544c C3L-04539.WGS.N.hg38 35697bb3-4b0e-498e-86b8-045a3b37c481 df5d9005-211e-4c94-9213-c4baab6a0aaa @@ -2169,6 +2221,8 @@ C3L-04757 LUAD WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LUAD/CPTAC3_LUA C3L-04757 LUAD WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LUAD/CPTAC3_LUAD_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04757.WGS.T.hg38.case.gene_level.log2.seg.gz 299553 SEG 260d7da8d377db550d77429acb1a68a9 C3L-04757.WGS.T.hg38 34305f06-2a3d-4e58-9625-3e051b9cb648 C3L-04757.WGS.N.hg38 622c8bbc-4f6e-4368-aad0-015fc56a074c 52ca896f-d215-465f-b32e-62009063c963 C3L-04759 LUAD WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LUAD/CPTAC3_LUAD_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04759.WGS.T.hg38.case.cnv.gz 6898 CNV 6465c054b432d15441715fb27cce030d C3L-04759.WGS.T.hg38 b257bc19-7dcf-456b-9392-9187805a8af0 C3L-04759.WGS.N.hg38 44924c91-e101-4a04-bb4a-1f386d8ad368 ed98169c-9614-4829-bb94-f82eaf26a30d C3L-04759 LUAD WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LUAD/CPTAC3_LUAD_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04759.WGS.T.hg38.case.gene_level.log2.seg.gz 298572 SEG b7daf918af250c79af0175c281587136 C3L-04759.WGS.T.hg38 b257bc19-7dcf-456b-9392-9187805a8af0 C3L-04759.WGS.N.hg38 44924c91-e101-4a04-bb4a-1f386d8ad368 ed98169c-9614-4829-bb94-f82eaf26a30d +C3L-04766 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04766.case.cnv.gz 12152 CNV ef8ec5c86b852cd74328087fd0712a99 C3L-04766.WGS.Tbm.hg38 d2f6501a-b963-45d6-a9a2-671b09642337 C3L-04766.WGS.Nbc.hg38 86308fbb-f98a-4d01-92c0-dcc81d98f203 d2e14e2f-5c67-472a-8230-c85d5d9e0c90 +C3L-04766 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-04766.case.gene_level.log2.seg.gz 299016 SEG eeaf4603af961fea4fb211f0c255a2aa C3L-04766.WGS.Tbm.hg38 d2f6501a-b963-45d6-a9a2-671b09642337 C3L-04766.WGS.Nbc.hg38 86308fbb-f98a-4d01-92c0-dcc81d98f203 d2e14e2f-5c67-472a-8230-c85d5d9e0c90 C3L-04786 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04786.WGS.T.hg38.case.cnv.gz 5093 CNV 2e18d6896b5178372c63427d83385d25 C3L-04786.WGS.T.hg38 6c11187b-9320-49ed-838d-692f239d9451 C3L-04786.WGS.N.hg38 75496f29-8401-4131-b320-d16cced4737b 2ceb53b9-bbda-45c5-bd8e-b4e156596c75 C3L-04786 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-04786.WGS.T.hg38.case.gene_level.log2.seg.gz 296566 SEG 7cc53dc7ef30b41af615cfd405e7519f C3L-04786.WGS.T.hg38 6c11187b-9320-49ed-838d-692f239d9451 C3L-04786.WGS.N.hg38 75496f29-8401-4131-b320-d16cced4737b 2ceb53b9-bbda-45c5-bd8e-b4e156596c75 C3L-04791 HNSCC WGS_CNV_Somatic v2.0 20200525 Y3 /CPTAC3.Y3_WashU/HNSCC/CPTAC3_HNSCC_WGS_CNV_Somatic_v2.0_Y3.b1_20200525/C3L-04791.cnv.gz 6192 TSV 3d268f0e523776e580b791e2ba244d7e C3L-04791.WGS.T.hg38 2f722cdb-c26e-49f6-81ff-354a229f13b4 C3L-04791.WGS.N.hg38 ef0d81fb-876a-49d7-b376-c9c4a9f74120 CNV @@ -2261,6 +2315,8 @@ C3L-05239 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_W C3L-05239 GBM WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/GBM/CPTAC3_GBM_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05239.WGS.T.hg38.case.gene_level.log2.seg.gz 296434 SEG 6b637b9d6a91ae8108a5be32375c574f C3L-05239.WGS.T.hg38 ec7424a2-cc70-4745-8abf-830399c53864 C3L-05239.WGS.N.hg38 74558bd0-2f33-412a-acc6-0274e7abf989 232b9b8c-6861-4bdb-87f5-d123cb5999c2 C3L-05369 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05369.WGS.T.hg38.case.cnv.gz 7456 CNV 7136aa5bd8ddfedc86d181986d2d6f3c C3L-05369.WGS.T.hg38 7a47cd4e-a586-4eb0-a8ce-65488b2b034e C3L-05369.WGS.N.hg38 fd313034-153a-492c-9e39-5991db231b8b 0caaa6fc-8f40-468a-985c-31ba9fee71f2 C3L-05369 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05369.WGS.T.hg38.case.gene_level.log2.seg.gz 298313 SEG 177a4a3a89acacfd7cb6060fa13c9037 C3L-05369.WGS.T.hg38 7a47cd4e-a586-4eb0-a8ce-65488b2b034e C3L-05369.WGS.N.hg38 fd313034-153a-492c-9e39-5991db231b8b 0caaa6fc-8f40-468a-985c-31ba9fee71f2 +C3L-05386 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-05386.case.cnv.gz 3649 CNV 3240382e45b6ef4c85998c2374c183ee C3L-05386.WGS.Tpb.hg38 f47fe90d-7a83-4f95-9c44-0c4ebc39d6b3 C3L-05386.WGS.Nbc.hg38 53b93788-0e38-4cb9-b5f2-818b0488012e ee79d9cc-6f2e-4955-b8ff-1f69eae0b6f9 +C3L-05386 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3L-05386.case.gene_level.log2.seg.gz 295734 SEG 26132a86b70340968876fd64fed28651 C3L-05386.WGS.Tpb.hg38 f47fe90d-7a83-4f95-9c44-0c4ebc39d6b3 C3L-05386.WGS.Nbc.hg38 53b93788-0e38-4cb9-b5f2-818b0488012e ee79d9cc-6f2e-4955-b8ff-1f69eae0b6f9 C3L-05392 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05392.WGS.T.hg38.case.cnv.gz 6747 CNV d4de3e34225e4bec802d7a8e54bc9cc0 C3L-05392.WGS.T.hg38 309533ab-d9a0-45eb-af78-d80eca0bcd5f C3L-05392.WGS.N.hg38 1b5199ab-2746-4ae7-ba6a-aacdf07a0429 5d2d00cd-85ca-420b-8477-8f709b5b724d C3L-05392 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05392.WGS.T.hg38.case.gene_level.log2.seg.gz 298436 SEG d355ee2636dc7131d9a6b227b036644b C3L-05392.WGS.T.hg38 309533ab-d9a0-45eb-af78-d80eca0bcd5f C3L-05392.WGS.N.hg38 1b5199ab-2746-4ae7-ba6a-aacdf07a0429 5d2d00cd-85ca-420b-8477-8f709b5b724d C3L-05393 LSCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/LSCC/CPTAC3_LSCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3L-05393.WGS.T.hg38.case.cnv.gz 16132 CNV a77beebe6ee2cdc9cbed760b9d9286b8 C3L-05393.WGS.T.hg38 33ef5b1e-3163-41e2-b8f3-056172b5e654 C3L-05393.WGS.N.hg38 59b8c0b8-7499-4bd3-b267-17d81f32b6b5 a650d973-083e-4233-8a90-c327bfad225c @@ -2724,6 +2780,8 @@ C3N-00439 CCRCC WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_C C3N-00439 CCRCC WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_SomaticCNV.batch_1021_20211015/C3N-00439.case.gene_level.log2.seg.gz 295205 SEG 24ce1429bb55ba1da60295856f27fef4 C3N-00439.WGS.T.hg38 7320615f-f97a-4b3f-9aa8-ebb477add16c C3N-00439.WGS.N.hg38 159352a4-acac-430d-8389-1491f5fc1dd7 c911432d-f7e8-4cec-9b47-b8d4e96c74c1 C3N-00440 CCRCC WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_SomaticCNV.batch_1021_20211015/C3N-00440.case.cnv.gz 2186 CNV c9d0dd4d16bdda0079ad04adc320361d C3N-00440.WGS.T.hg38 4affe234-7699-44cd-8e91-626d47876142 C3N-00440.WGS.N.hg38 c572aeac-e69f-43a0-aabc-144a4a239427 421b8a21-bb7c-4025-994e-ffddb9c52ab8 C3N-00440 CCRCC WGS_CNV_Somatic v2.5 20211015 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_SomaticCNV.batch_1021_20211015/C3N-00440.case.gene_level.log2.seg.gz 294920 SEG c3b44f8eff7cc6557b502b70a8c9f7b2 C3N-00440.WGS.T.hg38 4affe234-7699-44cd-8e91-626d47876142 C3N-00440.WGS.N.hg38 c572aeac-e69f-43a0-aabc-144a4a239427 421b8a21-bb7c-4025-994e-ffddb9c52ab8 +C3N-00466 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3N-00466.case.cnv.gz 4258 CNV 7a69ae13ebc4532752abf90f1ff56c3f C3N-00466.WGS.Tpb.hg38 36e006d3-5445-4d59-ac64-f4fb3512656e C3N-00466.WGS.Nbc.hg38 08d94116-dda1-410e-96e6-736a0455df56 5ceea6fd-9bd9-42e8-b8cf-1090919d41dc +C3N-00466 AML WGS_CNV_Somatic v2.5 20220419 Y3 /CPTAC3.Y3_WashU/AML/CPTAC3_AML_WGS_CNV_Somatic_v2.5_CPTAC3_AML_CNV_20220419/C3N-00466.case.gene_level.log2.seg.gz 296273 SEG 772a33d680a633e5757e3102ae9d66c5 C3N-00466.WGS.Tpb.hg38 36e006d3-5445-4d59-ac64-f4fb3512656e C3N-00466.WGS.Nbc.hg38 08d94116-dda1-410e-96e6-736a0455df56 5ceea6fd-9bd9-42e8-b8cf-1090919d41dc C3N-00491 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3N-00491.cnv 7315 TSV 1a86f14e88fe89babdec002c7801b5a5 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 CNV C3N-00491 CCRCC WGS_CNV_Somatic v2.0 20190124 Y1 /CPTAC3_WashU_hg38/CCRCC/WGS_CNV_Somatic.CCRCC.all.hg38_v2.0_20190124/C3N-00491.gene_level.log2.seg.gz 296370 TSV 20ccf59af09de9a2d9e31460f5229557 Unknown.Y1 Unknown.Y1 Unknown.Y1 Unknown.Y1 SEG C3N-00491 CCRCC WGS_CNV_Somatic v2.5 20211014 Y3 /CPTAC3.Y3_WashU/CCRCC/CPTAC3_CCRCC_WGS_CNV_Somatic_v2.5_WGS_CNV_Somatic.02_all_cases_rerun_20211014/C3N-00491.WGS.T.hg38.case.cnv.gz 3645 CNV c97636e77548274abcf7a339d75df0ea C3N-00491.WGS.T.hg38 b1ce6372-51c8-4a7b-9591-5b5a9a38b837 C3N-00491.WGS.N.hg38 cffe7716-affb-4c8f-a188-9d741c81a0ad 5c8359d2-9c22-45b5-afd8-bc5d1f41dbf8