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]
Correlate_Cluster_mutation_onlysig2.clinical.info.file	PRAD-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_PRAD-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	PRAD-TP.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
Correlate_Cluster_mutation_onlysig2.clinical.info.file	PRAD-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_PRAD-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
Correlate_Cluster_mutation_onlysig2.clinical.info.file	PRAD-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_PRAD-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
Correlate_Cluster_mutation_onlysig2.clinical.info.file	PRAD-TP.transferedmergedcluster.txt	gdac.broadinstitute.org_PRAD-TP.Aggregate_Molecular_Subtype_Clusters.Level_4.2013042100.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
mutsig2cluster_new1.sample.gene.table.file	PRAD-TP.sample_sig_gene_table.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	PRAD-TP.mutsig.cluster.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
mutsig2cluster_new1.sample.gene.table.file	PRAD-TP.sample_sig_gene_table.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	table.1.txt	Correlation-Clinical_Genes_SignificantlyMutated	Level_4	txt	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
mutsig2cluster_new1.sample.gene.table.file	PRAD-TP.sample_sig_gene_table.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
mutsig2cluster_new1.sample.gene.table.file	PRAD-TP.sample_sig_gene_table.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00504:3	Correlate_molecularSubtype_vs_Mutation_2013042100	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_PRAD-TP.Correlate_molecularSubtype_vs_Mutation.Level_4.2013042100.0.0	yes
