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]
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	broad_values_by_arm.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D49V3.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D15V1.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D48V3.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D63V2.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
cnvarms2cluster:sample.gene.table.file	broad_values_by_arm.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	broad_values_by_arm.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D49V3.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D15V1.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D48V3.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	D63V2.png	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	png	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
Correlate_Cluster_cnvarms_onlysig:clinical.info.file	LIHC-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_LIHC-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10432:3	Correlate_molecularSubtype_vs_CopyNumber_Arm_2013042100	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_LIHC-TP.Correlate_molecularSubtype_vs_CopyNumber_Arm.Level_4.2013042100.0.0	yes
