[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 …

Computational tools and resources for CRISPR/Cas genome editing

C Li, W Chu, RA Gill, S Sang, Y Shi, X Hu… - Genomics …, 2023 - academic.oup.com
The past decade has witnessed a rapid evolution in identifying more versatile clustered
regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein (Cas) …

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 …

The BioGRID interaction database: 2019 update

R Oughtred, C Stark, BJ Breitkreutz, J Rust… - Nucleic acids …, 2019 - academic.oup.com
Abstract The Biological General Repository for Interaction Datasets (BioGRID:
https://thebiogrid. org) is an open access database dedicated to the curation and archival …

Functional genomic landscape of cancer-intrinsic evasion of killing by T cells

KA Lawson, CM Sousa, X Zhang, E Kim, R Akthar… - Nature, 2020 - nature.com
The genetic circuits that allow cancer cells to evade destruction by the host immune system
remain poorly understood,–. Here, to identify a phenotypically robust core set of genes and …

Gradient of developmental and injury response transcriptional states defines functional vulnerabilities underpinning glioblastoma heterogeneity

LM Richards, OKN Whitley, G MacLeod, FMG Cavalli… - Nature Cancer, 2021 - nature.com
Glioblastomas harbor diverse cell populations, including rare glioblastoma stem cells
(GSCs) that drive tumorigenesis. To characterize functional diversity within this population …

Convergence of coronary artery disease genes onto endothelial cell programs

GR Schnitzler, H Kang, S Fang, RS Angom… - Nature, 2024 - nature.com
Linking variants from genome-wide association studies (GWAS) to underlying mechanisms
of disease remains a challenge,–. For some diseases, a successful strategy has been to …

Paralog knockout profiling identifies DUSP4 and DUSP6 as a digenic dependence in MAPK pathway-driven cancers

T Ito, MJ Young, R Li, S Jain, A Wernitznig… - Nature …, 2021 - nature.com
Although single-gene perturbation screens have revealed a number of new targets,
vulnerabilities specific to frequently altered drivers have not been uncovered. An important …

Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute

B Wang, M Wang, W Zhang, T **ao, CH Chen, A Wu… - Nature protocols, 2019 - nature.com
Genome-wide screening using CRISPR coupled with nuclease Cas9 (CRISPR–Cas9) is a
powerful technology for the systematic evaluation of gene function. Statistically principled …