[HTML][HTML] High-content CRISPR screening

C Bock, P Datlinger, F Chardon, MA Coelho… - Nature Reviews …, 2022 - nature.com
CRISPR screens are a powerful source of biological discovery, enabling the unbiased
interrogation of gene function in a wide range of applications and species. In pooled …

Chronos: a cell population dynamics model of CRISPR experiments that improves inference of gene fitness effects

JM Dempster, I Boyle, F Vazquez, DE Root, JS Boehm… - Genome biology, 2021 - Springer
CRISPR loss of function screens are powerful tools to interrogate biology but exhibit a
number of biases and artifacts that can confound the results. Here, we introduce Chronos …

Prioritization of cancer therapeutic targets using CRISPR–Cas9 screens

FM Behan, F Iorio, G Picco, E Gonçalves, CM Beaver… - Nature, 2019 - nature.com
Functional genomics approaches can overcome limitations—such as the lack of
identification of robust targets and poor clinical efficacy—that hamper cancer drug …

[HTML][HTML] Pan-cancer proteomic map of 949 human cell lines

E Gonçalves, RC Poulos, Z Cai, S Barthorpe… - Cancer cell, 2022 - cell.com
The proteome provides unique insights into disease biology beyond the genome and
transcriptome. A lack of large proteomic datasets has restricted the identification of new …

A benchmark of algorithms for the analysis of pooled CRISPR screens

S Bodapati, TP Daley, X Lin, J Zou, LS Qi - Genome biology, 2020 - Springer
Genome-wide pooled CRISPR-Cas-mediated knockout, activation, and repression screens
are powerful tools for functional genomic investigations. Despite their increasing importance …

Integrated cross-study datasets of genetic dependencies in cancer

C Pacini, JM Dempster, I Boyle, E Gonçalves… - Nature …, 2021 - nature.com
CRISPR-Cas9 viability screens are increasingly performed at a genome-wide scale across
large panels of cell lines to identify new therapeutic targets for precision cancer therapy …

[HTML][HTML] A comprehensive clinically informed map of dependencies in cancer cells and framework for target prioritization

C Pacini, E Duncan, E Gonçalves, J Gilbert, S Bhosle… - Cancer Cell, 2024 - cell.com
Genetic screens in cancer cell lines inform gene function and drug discovery. More
comprehensive screen datasets with multi-omics data are needed to enhance opportunities …

Agreement between two large pan-cancer CRISPR-Cas9 gene dependency data sets

JM Dempster, C Pacini, S Pantel, FM Behan… - Nature …, 2019 - nature.com
Genome-scale CRISPR-Cas9 viability screens performed in cancer cell lines provide a
systematic approach to identify cancer dependencies and new therapeutic targets. As …

High-resolution genome-wide map** of chromosome-arm-scale truncations induced by CRISPR–Cas9 editing

NH Lazar, S Celik, L Chen, MM Fay, JC Irish… - Nature …, 2024 - nature.com
Clustered regularly interspaced short palindromic repeats (CRISPR)–CRISPR-associated
protein 9 (Cas9) is a powerful tool for introducing targeted mutations in DNA, but recent …

Multiplex enCas12a screens detect functional buffering among paralogs otherwise masked in monogenic Cas9 knockout screens

M Dede, M McLaughlin, E Kim, T Hart - Genome biology, 2020 - Springer
Abstract Background Pooled library CRISPR/Cas9 knockout screening across hundreds of
cell lines has identified genes whose disruption leads to fitness defects, a critical step in …