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Removing deprecated label for aliquot CPT0086360006
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* corresponds to sample C3L-00908-03, which per working group
  request is a valid sample
* deprecated labels removed for this aliquot manually from CPTAC3.Catalog.dat
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@mwyczalkowski
mwyczalkowski committed Jan 16, 2021
1 parent 9adf9e8 commit 1a5bbb3
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Showing 2 changed files with 5 additions and 6 deletions.
10 changes: 5 additions & 5 deletions CPTAC3.Catalog.dat
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Original file line number Diff line number Diff line change
Expand Up @@ -3629,19 +3629,19 @@ C3L-00908.miRNA-Seq.A.hg38 C3L-00908 CCRCC miRNA-Seq tissue_normal CPT0086370006
C3L-00908.miRNA-Seq.T.RRNA_rokDXE C3L-00908 CCRCC miRNA-Seq tumor CPT0086350009 181113_UNC31-K00269_0164_AH23NNBBXY_CATGGC_S10_L005_R1_001.unaln.bam 159592216 BAM NA c7baf5bf-ac47-4c48-8613-d1740624348a 918420f6333943bca22ee271d18db2a3 NA Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.miRNA-Seq.T.RRNA_rokDXE.hg38 C3L-00908 CCRCC miRNA-Seq tumor CPT0086350009 33c921ea-b743-4d32-9c56-875de6028c71_mirnaseq_gdc_realn.bam 179925405 BAM NA 35b76590-bc93-4d51-86cc-58ea39c678b1 d9bb5104e97c611b1218318f1e27ea16 hg38 Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.RNA-Seq.chimeric.A.hg38 C3L-00908 CCRCC RNA-Seq tissue_normal CPT0086370006 33978301-eeb1-476e-a27e-8766cd745893.rna_seq.chimeric.gdc_realn.bam 81742297 BAM chimeric 0df337be-edde-4529-8b2b-54a4c1ace013 4b529e4d0aec0db285bf0680b22d7e8c hg38 Solid Tissue Normal C3L-00908-06
C3L-00908.RNA-Seq.chimeric.T.hg38.deprecated C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.chimeric.gdc_realn.bam 41299237 BAM chimeric 27290952-fff8-42ed-a3aa-1876caa8dd40 0fde308c07c0790ad4c285ac0f4451ba hg38 Primary Tumor C3L-00908-03 .deprecated
C3L-00908.RNA-Seq.chimeric.T.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.chimeric.gdc_realn.bam 41299237 BAM chimeric 27290952-fff8-42ed-a3aa-1876caa8dd40 0fde308c07c0790ad4c285ac0f4451ba hg38 Primary Tumor C3L-00908-03
C3L-00908.RNA-Seq.chimeric.T.RRNA_rokDXE.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086350009 4fd2b52f-511e-4b87-a93e-fffee98a4fb1.rna_seq.chimeric.gdc_realn.bam 45155082 BAM chimeric e3ad3c5f-2b8f-44bc-b7ff-d98803d93b6b 141c44222b9eccaf35402e9cbf8cc941 hg38 Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.RNA-Seq.genomic.A.hg38 C3L-00908 CCRCC RNA-Seq tissue_normal CPT0086370006 33978301-eeb1-476e-a27e-8766cd745893.rna_seq.genomic.gdc_realn.bam 6920387228 BAM genomic c0234479-43d9-41de-ae7b-a0658538cbdb 554ff6f903f2a55f492bface01cef1fc hg38 Solid Tissue Normal C3L-00908-06
C3L-00908.RNA-Seq.genomic.T.hg38.deprecated C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.genomic.gdc_realn.bam 8713498273 BAM genomic d6a6daab-f92b-4280-aef4-5754730368fd 403e5a66072f7c810ca03ffbb9afe13a hg38 Primary Tumor C3L-00908-03 .deprecated
C3L-00908.RNA-Seq.genomic.T.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.genomic.gdc_realn.bam 8713498273 BAM genomic d6a6daab-f92b-4280-aef4-5754730368fd 403e5a66072f7c810ca03ffbb9afe13a hg38 Primary Tumor C3L-00908-03
C3L-00908.RNA-Seq.genomic.T.RRNA_rokDXE.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086350009 4fd2b52f-511e-4b87-a93e-fffee98a4fb1.rna_seq.genomic.gdc_realn.bam 9458596524 BAM genomic bc81a137-597c-4a76-9736-e0ef13cd234a 9ea4e218ca3a17ec99761435f97c64e8 hg38 Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.RNA-Seq.R1.A C3L-00908 CCRCC RNA-Seq tissue_normal CPT0086370006 171205_UNC32-K00270_0069_BHN2HGBBXX_AGTCAA_S12_L003_R1_001.fastq.gz 3538178356 FASTQ NA d7f5f1c4-4092-45ab-95f7-571f2aeb4b58 3be4f172a7798a029e44faabab7e5aec NA Solid Tissue Normal C3L-00908-06
C3L-00908.RNA-Seq.R1.T.deprecated C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 171011_UNC31-K00269_0086_AHLJLCBBXX_GTCCGC_S9_L006_R1_001.fastq.gz 4675518805 FASTQ NA afd5ee0e-563c-4238-876a-a1f103037d5b 18912a5c516d47a67af05aebd310cb6b NA Primary Tumor C3L-00908-03 .deprecated
C3L-00908.RNA-Seq.R1.T C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 171011_UNC31-K00269_0086_AHLJLCBBXX_GTCCGC_S9_L006_R1_001.fastq.gz 4675518805 FASTQ NA afd5ee0e-563c-4238-876a-a1f103037d5b 18912a5c516d47a67af05aebd310cb6b NA Primary Tumor C3L-00908-03
C3L-00908.RNA-Seq.R1.T.RRNA_rokDXE C3L-00908 CCRCC RNA-Seq tumor CPT0086350009 180606_UNC32-K00270_0097_AHVCKFBBXX_TAGCTT_S25_L007_R1_001.fastq.gz 4497335523 FASTQ NA 7b04f1ce-15c3-43d2-9286-7a6d1f15e302 c0eb97ce345891af6daf78e0298b2701 NA Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.RNA-Seq.R2.A C3L-00908 CCRCC RNA-Seq tissue_normal CPT0086370006 171205_UNC32-K00270_0069_BHN2HGBBXX_AGTCAA_S12_L003_R2_001.fastq.gz 3745507489 FASTQ NA d69e6d8c-0db1-43d0-817e-71306ba1e0b6 f9a0af7c4a60f562e361e9d71128b85f NA Solid Tissue Normal C3L-00908-06
C3L-00908.RNA-Seq.R2.T.deprecated C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 171011_UNC31-K00269_0086_AHLJLCBBXX_GTCCGC_S9_L006_R2_001.fastq.gz 5005750144 FASTQ NA 0e355758-ba51-4012-8001-df2c458e6742 2266ab7b0e9619b251438371ca3c2118 NA Primary Tumor C3L-00908-03 .deprecated
C3L-00908.RNA-Seq.R2.T C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 171011_UNC31-K00269_0086_AHLJLCBBXX_GTCCGC_S9_L006_R2_001.fastq.gz 5005750144 FASTQ NA 0e355758-ba51-4012-8001-df2c458e6742 2266ab7b0e9619b251438371ca3c2118 NA Primary Tumor C3L-00908-03
C3L-00908.RNA-Seq.R2.T.RRNA_rokDXE C3L-00908 CCRCC RNA-Seq tumor CPT0086350009 180606_UNC32-K00270_0097_AHVCKFBBXX_TAGCTT_S25_L007_R2_001.fastq.gz 4812306259 FASTQ NA 4ba00e47-13e7-4f56-b8c4-77d73ba76363 13c2d5dd46289aeb707903a147444417 NA Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.RNA-Seq.transcriptome.A.hg38 C3L-00908 CCRCC RNA-Seq tissue_normal CPT0086370006 33978301-eeb1-476e-a27e-8766cd745893.rna_seq.transcriptome.gdc_realn.bam 7596748895 BAM transcriptome fed71d5b-30dd-4a8a-a9e1-f105e171bfdb 7504b0ac6ef6f3f5c4ed09d45c01242d hg38 Solid Tissue Normal C3L-00908-06
C3L-00908.RNA-Seq.transcriptome.T.hg38.deprecated C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.transcriptome.gdc_realn.bam 10307359310 BAM transcriptome 50c099e3-f37b-4e62-bf61-9f3730126961 96e93b8900ad9d3dc3ec5f7bdf06768b hg38 Primary Tumor C3L-00908-03 .deprecated
C3L-00908.RNA-Seq.transcriptome.T.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086360006 45aac17f-748d-4e45-9868-a92c7a080a65.rna_seq.transcriptome.gdc_realn.bam 10307359310 BAM transcriptome 50c099e3-f37b-4e62-bf61-9f3730126961 96e93b8900ad9d3dc3ec5f7bdf06768b hg38 Primary Tumor C3L-00908-03
C3L-00908.RNA-Seq.transcriptome.T.RRNA_rokDXE.hg38 C3L-00908 CCRCC RNA-Seq tumor CPT0086350009 4fd2b52f-511e-4b87-a93e-fffee98a4fb1.rna_seq.transcriptome.gdc_realn.bam 11850040045 BAM transcriptome f21afd3e-77f7-4f4a-834f-aef66726fc9c eea3ae120588bd6b2763cac2baf510f9 hg38 Primary Tumor C3L-00908-01 replacement_RNA RRNA_rokDXE Duplicate item: Replacement RNA Distribution - original aliquot failed
C3L-00908.WGS.A C3L-00908 CCRCC WGS tissue_normal CPT0086370009 CPT0086370009.WholeGenome.RP-1303.bam 55614160288 BAM NA cfc1cfce-10fe-4132-8a7d-f0c17f9769dc d53670a31e44a2b09fffee26ada8728e hg19 Solid Tissue Normal C3L-00908-06
C3L-00908.WGS.A.hg38 C3L-00908 CCRCC WGS tissue_normal CPT0086370009 b24781e1-0f33-43d9-8170-f244f66254b5_wgs_gdc_realn.bam 83858918538 BAM NA b76815f5-7f34-444f-b515-073f3c0fd55d bff453956793aeb5cb46435f151ba533 hg38 Solid Tissue Normal C3L-00908-06
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1 change: 0 additions & 1 deletion SampleRename.dat
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Original file line number Diff line number Diff line change
Expand Up @@ -215,7 +215,6 @@ CPT0097710009 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0125260005 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0177700006 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0206350009 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0086360006 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0229210013 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0232670009 * .deprecated # Aliquot marked as IGNORE per Mathangi
CPT0066890009 * .deprecated # Aliquot marked as IGNORE per Mathangi
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