DepMap 19Q2 Public

This dataset contains the results of Avana library CRISPR-Cas9 genome-scale knockout (prefixed with Achilles) as well as mutation, copy number and gene expression data (prefixed with CCLE) for cancer cell lines as part of the Broad Institute’s Cancer Dependency Map project. We have repackaged our fileset to include all quarterly-updating datasets produced by DepMap. <br>The Avana CRISPR-Cas9 genome-scale knockout data has expanded to include 563 cell lines, the RNAseq data includes 1200 cell lines, and the copy number data includes 1,626 cell lines. Please see the README files for details regarding data processing pipeline procedures updates.<br>As our screening efforts continue, we will be releasing additional cancer dependency data on a quarterly basis for unrestricted use. For the latest datasets available, further analyses, and to subscribe to our mailing list visit https://depmap.org.<br>Descriptions of the experimental methods and the CERES algorithm are published in http://dx.doi.org/10.1038/ng.3984. Some cell lines were process using copy number data based on the Sanger Institute whole exome sequencing data (COSMIC: http://cancer.sanger.ac.uk.cell_lines, EGA accession number: EGAD00001001039) reprocessed using CCLE pipelines. A detailed description of the pipelines and tool versions for CCLE expression can be found here: https://github.com/broadinstitute/gtex-pipeline/blob/v9/TOPMed_RNAseq_pipeline.md. <br>

本数据集为布罗德研究所（Broad Institute）癌症依赖图谱（Cancer Dependency Map, 简称DepMap）项目的组成部分，包含以Achilles为前缀的Avana文库全基因组CRISPR-Cas9敲除结果，以及以癌症细胞系百科全书（CCLE）为前缀的癌细胞系突变、拷贝数变异与基因表达数据。我们已重新打包文件集，纳入了DepMap产出的所有季度更新数据集。
其中Avana文库全基因组CRISPR-Cas9敲除数据已扩展至涵盖563株细胞系，RNA测序（RNA-seq）数据覆盖1200株细胞系，拷贝数变异数据则涵盖1626株细胞系。有关数据处理流程更新的详细信息，请参阅README文件。
随着筛选工作的持续推进，我们将按季度发布更多可无限制使用的癌症依赖数据。如需获取最新可用数据集、开展进一步分析或订阅邮件列表，请访问https://depmap.org。
实验方法与CERES算法的相关描述已发表于http://dx.doi.org/10.1038/ng.3984。部分细胞系的拷贝数变异数据基于桑格研究所（Sanger Institute）的全外显子组测序数据（癌症体细胞突变目录（COSMIC）：http://cancer.sanger.ac.uk.cell_lines，欧洲基因组-表型档案（EGA）登录号：EGAD00001001039），并通过CCLE流程重新处理得到。有关CCLE基因表达数据的处理流程与工具版本的详细说明，请参阅：https://github.com/broadinstitute/gtex-pipeline/blob/v9/TOPMed_RNAseq_pipeline.md。