CERES - Meyers, Bryan, et al. Nature Genetics. 2017.

Meyers, Bryan, et al. Computational correction of copy-number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells. Nature Genetics. 2017.

External data:

CCLE_copynumber_2013-12-03.seg.txt

CCLE copy number data downloaded from https://data.broadinstitute.org/ccle_legacy_data/dna_copy_number/CCLE_copynumber_2013-12-03.seg.txt

CCLE_RNAseq_081117.rpkm.gct

CCLE gene expression data downloaded from https://data.broadinstitute.org/ccle/CCLE_RNAseq_081117.rpkm.gct

ccle2maf_081117.txt

CCLE mutation data downloaded from https://data.broadinstitute.org/ccle/ccle2maf_081117.txt

Achilles_v2.20.2_GeneSolutions.gct

RNAi DEMETER gene dependencies downloaded from https://portals.broadinstitute.org/achilles/datasets/12/download/Achilles_v2.20.2_GeneSolutions.gct

CCDS.current.txt

CCDS gene annotations downloaded from ftp://ftp.ncbi.nlm.nih.gov/pub/CCDS/archive/15/CCDS.current.txt

c2.all.v6.0.symbols.gmt

MSigDB genesets downloaded from http://software.broadinstitute.org/gsea/msigdb/download_file.jsp?filePath=/resources/msigdb/6.0/c2.all.v6.0.symbols.gmt

avana_rs2.txt and gecko_rs2.txt

Doench-Root scores for sgRNAs provided by authors of Doench, et al. Nat. Biotechnol. 2016.