Resources

User created DepMap tutorial (11 mins)

Data

How to download co-dependencies?
What's the data structure of the PRISM Drug sensitivty AUC data?
Is there a possibility to download the “Top Co-dependencies” Pearson correlation coefficients of the CRISPR screen which can be searched for each gene on the depmap portal web page?
How do I download and calculate gene statistics?

We want to compare our WGS data with DepMap, therefore we would like to access the raw read counts to analyze the counts with our own pipeline.

Screens

Cancer versus non-cancer dependencies
How would you calculate combined scores for CRISPR & RNAi dependencies?

Analysis

What is the relationship between the DepMap Project and the Bioconductor R package ‘depmap’?
What is relative copy number/copy number ratio?
I’m interested in the log fold change data for Achilles. How do I map it to cell lines?

Use Cases

How to Identify Genetic Dependencies Using the DepMap Portal

Gene Overview Pages

Dependent Cell Lines and Enriched Lineages Tiles
Expression & CN and Mutations Tiles
Top Co-Dependencies, Target Tractability, and Description Tiles

Data Explorer

Visualizing Data Using Violin Plots
Visualizing Data Using Scatter Plots

READMEs

Omics Processing Pipeline

MetMap

A metastasis map of human cancer cell lines

PedDep

A First-Generation Pediatric Cancer Dependency Map

Webster

Explore relationships between genes and biological functions learned from CRISPR fitness screens using Webster.