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]
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_RSEM_normalized_log2.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_geneid_transcriptid_mapping.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	gp_execution_log.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_scaled_estimate.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	stdout.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_raw_counts.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_RSEM_normalized_log2.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_geneid_transcriptid_mapping.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	gp_execution_log.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_scaled_estimate.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	stdout.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
hisequnc2raw	BRCA-TP.rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.data.txt	gdac.broadinstitute.org_BRCA-TP.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2012122100.1.0	urn:lsid:broadinstitute.org:cancer.genome.analysis:10090:23	mRNAseq_Preprocess_2012122100	BRCA-TP.uncv2.mRNAseq_raw_counts.txt	Expression_mRNAseq	Level_4	txt	gdac.broadinstitute.org_BRCA-TP.mRNAseq_Preprocess.Level_4.2012122100.0.0	yes
