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data_schema.txt
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data_schema.txt
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file_name description source_website
CCLE_DepMap_18q3_maf_20180718.txt "Merged mutation calls (coding region, germline filtered)" portals.broadinstitute.org/ccle/data
CCLE_Fusions_20181130.txt CCLE fusion calls for 1019 cell lines portals.broadinstitute.org/ccle/data
CCLE_Fusions_unfiltered_20181130.txt Unfiltered STAR-Fusion calls portals.broadinstitute.org/ccle/data
CCLE_translocations_SvABA_20181221.xlsx CCLE structural variants (SvABA calls) for 329 cell lines portals.broadinstitute.org/ccle/data
CCLE_miRNA_20181103.gct CCLE miRNA expression data portals.broadinstitute.org/ccle/data
CCLE_GlobalChromatinProfiling_20181130.csv CCLE Global Chromatin Profiling data portals.broadinstitute.org/ccle/data
CCLE_RPPA_20181003.csv CCLE Reverse Phase Protein Array (RPPA) data portals.broadinstitute.org/ccle/data
CCLE_RPPA_Ab_info_20181226.csv RPPA antibody information portals.broadinstitute.org/ccle/data
CCLE_RNAseq_genes_rpkm_20180929.gct.gz CCLE RNAseq gene expression data for 1019 cell lines (RPKM) portals.broadinstitute.org/ccle/data
CCLE_RNAseq_rsem_genes_tpm_20180929.txt.gz "CCLE RNAseq gene expression data for 1019 cell lines (RSEM, gene)" portals.broadinstitute.org/ccle/data
CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz "CCLE RNAseq gene expression data for 1019 cell lines (RSEM, transcript)" portals.broadinstitute.org/ccle/data
CCLE_RNAseq_genes_counts_20180929.gct.gz CCLE RNAseq gene expression data for 1019 cell lines (read counts) portals.broadinstitute.org/ccle/data
CCLE_RNAseq_ExonUsageRatio_20180929.gct.gz CCLE RNAseq gene expression data for 1019 cell lines (Exon inclusion ratios) portals.broadinstitute.org/ccle/data
CCLE_RNAseq_ExonUsageRatio_denominatorCnt_20180929.gct.gz CCLE RNAseq gene expression data for 1019 cell lines (Exon inclusion ratio denominator) portals.broadinstitute.org/ccle/data
gencode.v19.genes.v7_model.patched_contigs.gtf.gz "Gene definitions (GENCODE19, GTEx7)" portals.broadinstitute.org/ccle/data
CCLE_RRBS_TSS1kb_20181022.txt.gz CCLE DNA methylation data (promoter 1kb upstream TSS portals.broadinstitute.org/ccle/data
CCLE_RRBS_tss_CpG_clusters_20181022.txt.gz CCLE DNA methylation data (promoter CpG clusters) portals.broadinstitute.org/ccle/data
CCLE_RRBS_cgi_CpG_clusters_20181119.txt.gz CCLE DNA methylation data (CpG islands) portals.broadinstitute.org/ccle/data
CCLE_RRBS_enh_CpG_clusters_20181119.txt.gz CCLE DNA methylation data (VISTA enhancers) portals.broadinstitute.org/ccle/data
CCLE_ABSOLUTE_combined_20181227.xlsx CCLE ABSOLUTE copy number analysis results portals.broadinstitute.org/ccle/data
Cell_lines_annotations_20181226.txt Cell line annotations portals.broadinstitute.org/ccle/data
CCLE_metabolomics_20190502.csv "CCLE metabolomics dataset (clean, imputed)" portals.broadinstitute.org/ccle/data
Achilles_gene_effect.csv "DepMap Avana CRISPR-cas9 screening dependency scores, 19Q3 release" depmap.org/portal/download/
D2_Achilles_gene_dep_scores.csv "DepMap Achilles RNAi screening dependency scores, DEMETER2 v5" depmap.org/portal/download/
D2_DRIVE_gene_dep_scores.csv "Novartis DRIVE RNAi screening dependency scores, DEMETER2 v5" depmap.org/portal/download/
CCLE_gene_cn.csv Gene-level copy number ratios, log2(relative to ploidy + 1) depmap.org/portal/download/
depmap_19Q1_mutation_calls.csv Gene-level mutation calls and classifications depmap.org/portal/download/
sample_info.csv Cell line metadata depmap.org/portal/download/
41586_2019_1186_MOESM4_ESM.xlsx Cell line annotations Supplementary Table 1
41586_2019_1186_MOESM8_ESM.xlsx TERT promoter mutation annotations Supplementary Table 5
41586_2019_1186_MOESM10_ESM.xlsx Microsatellite instability (MSI) annotations Supplementary Table 7
41586_2019_1186_MOESM17_ESM RPPA antibody information Supplementary Table 14
9606.protein.links.v11.0.txt.gz STRING-DB protein-protein links https://string-db.org/cgi/download.pl?species_text=Homo+sapiens
ensembl_gene_protein.txt ENSEMBL gene-transcript-protein mapping http://useast.ensembl.org/biomart/
CTRPv2.0_2015_ctd2_ExpandedDataset.zip CTRP drug response AUC scores ftp://caftpd.nci.nih.gov/pub/OCG-DCC/CTD2/Broad/CTRPv2.0_2015_ctd2