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]
GDAC_geneListPathwayEnrichment1.geneList_mutation	GBM-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_mutation	GBM-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.MSigDB_C2	c2.cp.v3.0-2.symbols.gmt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.MSigDB_C2	c2.cp.v3.0-2.symbols.gmt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_exprCghCor	GBM-TP.CORS.tsv	gdac.broadinstitute.org_GBM-TP.Correlate_CopyNumber_vs_mRNA.Level_4.2013052300.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_exprCghCor	GBM-TP.CORS.tsv	gdac.broadinstitute.org_GBM-TP.Correlate_CopyNumber_vs_mRNA.Level_4.2013052300.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_gisticDel	del_genes.conf_99.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_gisticDel	del_genes.conf_99.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_gisticAmp	amp_genes.conf_99.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_gisticAmp	amp_genes.conf_99.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_expr	GBM-TP.subclassmarkers.txt	gdac.broadinstitute.org_GBM-TP.mRNA_Clustering_Consensus.Level_4.2013052300.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.geneList_expr	GBM-TP.subclassmarkers.txt	gdac.broadinstitute.org_GBM-TP.mRNA_Clustering_Consensus.Level_4.2013052300.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.refseqGeneInfo	hg18_refseq_download.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
GDAC_geneListPathwayEnrichment1.refseqGeneInfo	hg18_refseq_download.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00291:35	Pathway_FindEnrichedGenes_2013052300	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_GBM-TP.Pathway_FindEnrichedGenes.Level_4.2013052300.0.0	yes
