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_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.functional_impact_by_gene.txt	Mutations-Predicted_Functional_Consequences_Genes	Level_4	text	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.maf.annotated	Mutations-Predicted_Functional_Consequences_Genes	Level_4	maf	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.maf.annotated	Mutations-Predicted_Functional_Consequences_Genes	Level_4	maf	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor:input.maf.file	HNSC-TP.final_analysis_set.maf	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.functional_impact_by_gene.txt	Mutations-Predicted_Functional_Consequences_Genes	Level_4	text	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.maf.annotated	Mutations-Predicted_Functional_Consequences_Genes	Level_4	maf	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.maf.annotated	Mutations-Predicted_Functional_Consequences_Genes	Level_4	maf	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	HNSC-TP.sig_genes.txt	Mutations-Significance_Analysis	Level_4	text	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
GDAC_Mutation_Assessor_Report:mutsig.sig.genes	HNSC-TP.sig_genes.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:10491:6	Mutation_Assessor_2014041600	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_HNSC-TP.Mutation_Assessor.Level_4.2014041600.0.0	yes
