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]
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.geneheatmaptopgenes.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.cormatrix.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.geneheatmap.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.silfig.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.bestclus.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.allclusters.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.subclassmarkers.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.8.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.5.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.2.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.3.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.7.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.4.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.6.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_TopgenesforCluster1.expfile	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.geneheatmaptopgenes.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.cormatrix.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.geneheatmap.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.silfig.png	MolecularSubtypes-Expression_mRNA	Level_4	png	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.bestclus.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.allclusters.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	BRCA.subclassmarkers.txt	MolecularSubtypes-Expression_mRNA	Level_4	text	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.8.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.5.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.2.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.3.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.7.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.4.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	outputprefix.expclu.sub600.srt.6.gif	MolecularSubtypes-Expression_mRNA	Level_4	gif	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	nozzle.html	report	Level_4	html	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
GDAC_selectBestcluster3.inputallexp	BRCA.mRNAseq_RPKM_tmm_log2.txt	N/A	urn:lsid:broadinstitute.org:cancer.genome.analysis:00445:13	mRNAseq_Clustering_Consensus_2012021700	nozzle.RData	report	Level_4	RData	gdac.broadinstitute.org_BRCA.mRNAseq_Clustering_Consensus.Level_4.2012021700.0.0
