This DepMap release contains data from in vitro studies of genetic dependencies in cancer cell lines using CRISPR/Cas9 loss-of-function screens from project Achilles, project Sanger, and several other datasets (e.g. CCLE)
Data resource: https://depmap.org/portal/download/all/
The 24Q2 release notes are described here: https://forum.depmap.org/t/announcing-the-24q2-release/3312
See the following resource for more information: https://forum.depmap.org/t/depmap-genetic-dependencies-faq/131
Integrated dataset processed by a joint Chronos run for the Achilles dataset (Avana library) combined with the Sanger dataset (KY library). The two datasets were adjusted for by Chronos 2.0 and integrated using a ComBat-based algorithm called Harmonia.
Chronos adjusts for sgRNA efficacy, screen quality, differential cell growth rates, and copy number differences across cell models.
Dempster, J.M., Boyle, I., Vazquez, F. et al. Chronos: a cell population dynamics model of CRISPR experiments that improves inference of gene fitness effects. Genome Biol 22, 343 (2021). https://doi.org/10.1186/s13059-021-02540-7
The dataset is also adjusted for gene knockout effects that occur on the same chromosome arm.
This data comprises scores from individual CRISPR gene knockout screens in cancer cell lines for every gene across many different ages and cancer types. The values represent gene dependency probability estimates for cell survival and growth for all models in the integrated gene effect. The higher the score, the greater the gene dependency.
The probability estimate is derived from the CRISPRGeneEffect estimates.
Columns (18,444): gene Rows (1,150): the ModelID
This file gives details on the cell lines, type of cancer, sex, age, and unique IDs of the patient.
Columns (30): description of cancer, and patient's biological and ID information Rows (1,960): the ModelID