Announcements


May 7, 2019

  • We’ve restructured data file names, consolidated cell line metadata, and written more comprehensive READMEs in an attempt to be more clear and intuitive in how we present data files.

  • The terminology ‘DepMap_ID’ is replacing ‘Broad_ID’. IDs will remain the same, but column names have changed.

  • Gene level copy number changed from log2(CN) to log2(CN+1)

  • Tools that use a binarized definition of mutations have been updated to reflect the categories we use in visualizations. See the mutation annotation page for mutation categories used.

  • Look and interface of the downloads page and the cell line page have been updated.


Feb 20, 2019

  • Updated sources for certain cell lines. See the corrected dataset here.


Feb 6, 2019


Feb 1, 2019

  • New co-dependency card in gene overview.

  • Updated the Combined RNAi (Broad, Novartis, Marcotte) dataset. This fixes a minor bug with Marcotte LFC data that caused hairpins targeting multiple genes to appear multiple times in the LFC matrix. The bug created bias in the seed effect estimates for those hairpins, causing very minor differences to the resulting model parameters.

  • Updated pipelines used for expression, mutation, and copy number. See more details here.

  • Hotspot mutations are now shown in the portal. See the mutation annotation page for definitions of mutation categories

  • Updated the per-gene mutations table to enable showing/hiding columns.

  • Corrected the 18Q4 transcript-level expression data, which previously was collapsed to just per gene levels. The corrected dataset has counts on a per transcript level and is available here.

  • Added CTD2 dose-level data. See dose-response curves on compound sensitivity pages by clicking on a cell line.

  • Updated the Sanger GDSC data to the March 2018 update (v17.3).

  • Added ability to search cell lines by aliases and DepMap IDs.


Dec 19, 2018

  • Updated the DepMap Public 18Q4 README to version 2.


Nov 9, 2018

  • Corrected the expression data to fix incorrect gene symbols for some genes. See the corrected dataset here.


November 5, 2018

New data and summary overviews

  • Expression data now TPM instead of RPKM

  • New mutation categories, see here for details


August 31, 2018

Correction to 18Q1, 18Q2 and 18Q3 copy number datasets.

  • 18Q1, 18Q2 and 18Q3 copy number datasets have been updated to correctly reflect released cell lines. These updated files are named "public_18Q3_gene_cn_v2.csv" and so on.


August 6, 2018

More data, new apps, and a new way to get an overview.

  • New 18Q3 Avana + Omics DepMap Release

  • All RNAi data is now processed by DEMETER2

  • New downloads section includes all data from Achilles and CCLE portals

  • New gene overview provides at-a-glance results for a gene (and works on mobile!)

  • New Cell STRAINER app allows users to assess genetic discordance between their cell line sample to the corresponding reference in CCLE


May 7, 2018

Updated DepMap data to "Public 18Q2" Release

  • Avana CRISPR screen dataset expanded to include 436 cell lines.

  • Mutation, indel, copy number and gene expression data also expanded to include new lines in Avana dataset

  • Added Combined Broad, Novartis, Marcotte et al. RNAi data: 713 unique cell lines screened across three large-scale RNAi datasets, with integrated gene dependencies estimated using the DEMETER2 algorithm


June 6, 2018

  • Corrected incorrect copy number data which was shown for some cell lines.