DepMap: The Cancer Dependency Map Project at Broad Institute

• Tutorial pdf

• Gene dpendency：
  A genetic dependency is a gene that is considered necessary for the proliferation and survival of a given cell population.

Gene dependency 图表解读

The dependent cell lines tile

Gene Effect Score ：扰动后的效应。

• 算法：DEMETER2 (RNAi) or Chronos (CRISPR) 。
• normalization：已知的common essential genes 的median effect score为 -1，non-essential 为0，normalization。效应越大，越负。

图中信息
a) the distribution of gene effect scores
b) the fraction of cell lines classified asdependenton the gene
c) a category assigned to each dependency profile when/as appropriate.

根据gene effect score distribution 分成3类基因
1.Strongly Selective Distribution

Strongly Selective Distribution ： 在某些cell lines 中 dependent

2.Common-Essential Distribution

Common-Essential Distribution ：在大部分cell lines 中 dependent，-1附近或者更负

3.Non-essential Distribution

Non-essential Distribution ：大部分分布在 0 附近

• CRISPR KO vs RNAi Knockdown

  
  differences between

• Dependent or Not 的分类
  与 已知essential、non相比较，计算dependent 的概率 ，>0.5 则定义为dependent。算法：Extracting Biological Insights from the Project Achilles Genome-Scale CRISPR Screens in Cancer Cell Lines | bioRxiv

Data explorer

data explorer correlation WRN & MSI

Data Download

选择性下载感兴趣 细胞系 / gene 的相关数据集中的数据 ：custom download

custom

下载项目的整个数据集 ：File download