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_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.geneheatmaptopgenes.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.cophenetic.coefficient.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k3.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.all.k.plot.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k2.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k5.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.silfig.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k4.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.cormatrix.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.geneheatmap.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k7.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k8.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k6.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.bestclus.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.subclassmarkers.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_TopgenesforCluster1.expfile	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.geneheatmaptopgenes.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.cophenetic.coefficient.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k3.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.all.k.plot.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k2.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k5.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.silfig.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k4.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.cormatrix.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.geneheatmap.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k7.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k8.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	cnmf.consensus.plot.k6.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.bestclus.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	KIRP.subclassmarkers.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
GDAC_CNMFselectcluster3.inputallexp	KIRP.meth.filtered.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00415:32	Methylation_Clustering_CNMF_2012052500	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_KIRP.Methylation_Clustering_CNMF.Level_4.2012052500.0.0	yes
