Pipeline Input Name	Archive Result File REF	Comment [TCGA Archive Name]	Protocol REF	Data Transformation Name	Derived Data File	Comment [TCGA Data Type]	Comment [TCGA Data Level]	Comment [TCGA File Type]	Comment [TCGA Archive Name]	Comment [TCGA Include for Analysis]
cnvarms2cluster1.sample.gene.table.file	broad_values_by_arm.txt	gdac.broadinstitute.org_CESC-TP.CopyNumber_Gistic2.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	broad_values_by_arm.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
cnvarms2cluster1.sample.gene.table.file	broad_values_by_arm.txt	gdac.broadinstitute.org_CESC-TP.CopyNumber_Gistic2.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
cnvarms2cluster1.sample.gene.table.file	broad_values_by_arm.txt	gdac.broadinstitute.org_CESC-TP.CopyNumber_Gistic2.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	D12V6.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
cnvarms2cluster1.sample.gene.table.file	broad_values_by_arm.txt	gdac.broadinstitute.org_CESC-TP.CopyNumber_Gistic2.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
cnvarms2cluster1.sample.gene.table.file	broad_values_by_arm.txt	gdac.broadinstitute.org_CESC-TP.CopyNumber_Gistic2.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
Correlate_Clinical_Cnvsarms_onlysig2.clinical.info.file	CESC-TP.clin.merged.picked.txt	gdac.broadinstitute.org_CESC-TP.Clinical_Pick_Tier1.Level_4.2013011600.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	broad_values_by_arm.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
Correlate_Clinical_Cnvsarms_onlysig2.clinical.info.file	CESC-TP.clin.merged.picked.txt	gdac.broadinstitute.org_CESC-TP.Clinical_Pick_Tier1.Level_4.2013011600.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
Correlate_Clinical_Cnvsarms_onlysig2.clinical.info.file	CESC-TP.clin.merged.picked.txt	gdac.broadinstitute.org_CESC-TP.Clinical_Pick_Tier1.Level_4.2013011600.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	D12V6.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
Correlate_Clinical_Cnvsarms_onlysig2.clinical.info.file	CESC-TP.clin.merged.picked.txt	gdac.broadinstitute.org_CESC-TP.Clinical_Pick_Tier1.Level_4.2013011600.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
Correlate_Clinical_Cnvsarms_onlysig2.clinical.info.file	CESC-TP.clin.merged.picked.txt	gdac.broadinstitute.org_CESC-TP.Clinical_Pick_Tier1.Level_4.2013011600.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00500:21	Correlate_Clinical_vs_CopyNumber_Arm_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_CESC-TP.Correlate_Clinical_vs_CopyNumber_Arm.Level_4.2013011600.0.0	yes
