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]
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.final_analysis_set.maf	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	TP53.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	KRAS.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RPL22.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ARID1A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RNF43.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PIK3CA.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PHF2.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PGM5.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ACVR2A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
sig_table	STAD-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.final_analysis_set.maf	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	TP53.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	KRAS.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RPL22.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ARID1A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RNF43.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PIK3CA.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PHF2.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PGM5.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ACVR2A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
mutsig_version	STAD-TP.MutSig_version.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.final_analysis_set.maf	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	TP53.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	KRAS.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RPL22.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ARID1A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RNF43.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PIK3CA.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PHF2.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PGM5.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ACVR2A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
stick_figures_path	generatedStickFigurePaths.txt	gdac.broadinstitute.org_STAD-TP.GenerateStickFiguresS2N.Level_4.2013011600.0.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	STAD-TP.final_analysis_set.maf	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	TP53.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	KRAS.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RPL22.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ARID1A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	RNF43.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PIK3CA.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PHF2.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	PGM5.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	ACVR2A.stick_fig.png	Mutations-Significance_Analysis	Level_4	png	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
maf_path	STAD-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00413:36	MutSigNozzleReportS2N_2013011600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_STAD-TP.MutSigNozzleReportS2N.Level_4.2013011600.0.0	yes
