Genome-scale CRISPR screening at high sensitivity with an empirically designed sgRNA library

Multilayered VBC score predicts sgRNAs that efficiently generate loss-of-function alleles

(2020) Georg Michlits et al.   NATURE METHODS

Guidelines for optimized gene knockout using CRISPR/Cas9

(2019) Claude Van Campenhout et al.   BIOTECHNIQUES

Prioritization of cancer therapeutic targets using CRISPR–Cas9 screens

(2019) Fiona M. Behan et al.   NATURE

CRISPR knockout screen implicates three genes in lysosome function

(2019) Guy M. Lenk et al.   Scientific Reports

Systematic characterization of BAF mutations provides insights into intracomplex synthetic lethalities in human cancers

(2019) Sandra Schick et al.   NATURE GENETICS

Identification of the Cell-Surface Protease ADAM9 as an Entry Factor for Encephalomyocarditis Virus

(2019) Jim Baggen et al.   mBio

Biological plasticity rescues target activity in CRISPR knock outs

(2019) Arne H. Smits et al.   NATURE METHODS

Optimized CRISPR guide RNA design for two high-fidelity Cas9 variants by deep learning

(2019) Daqi Wang et al.   Nature Communications

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

(2019) Joshua M. Dempster et al.   Nature Communications

Improved design and analysis of CRISPR knockout screens

(2018) Chen-Hao Chen et al.   BIOINFORMATICS

Past, present, and future of Bcr-Abl inhibitors: from chemical development to clinical efficacy

(2018) Federico Rossari et al.   Journal of Hematology & Oncology

Haploid genetic screens identify genetic vulnerabilities to microtubule-targeting agents

(2018) Nora M. Gerhards et al.   Molecular Oncology

Defining essential genes for human pluripotent stem cells by CRISPR–Cas9 screening in haploid cells

(2018) Atilgan Yilmaz et al.   NATURE CELL BIOLOGY

CRISPR–Cas9 genome editing in human cells occurs via the Fanconi anemia pathway

(2018) Chris D. Richardson et al.   NATURE GENETICS

Map of synthetic rescue interactions for the Fanconi anemia DNA repair pathway identifies USP48

(2018) Georgia Velimezi et al.   Nature Communications

Ensembl 2019

(2018) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

Optimized libraries for CRISPR-Cas9 genetic screens with multiple modalities

(2018) Kendall R. Sanson et al.   Nature Communications

Phenotype databases for genetic screens in human cells

(2017) Benedikt Rauscher et al.   JOURNAL OF BIOTECHNOLOGY

Computational correction of copy number effect improves specificity of CRISPR–Cas9 essentiality screens in cancer cells

(2017) Robin M Meyers et al.   NATURE GENETICS

Emerging and evolving concepts in gene essentiality

(2017) Giulia Rancati et al.   NATURE REVIEWS GENETICS

Am I ready for CRISPR? A user's guide to genetic screens

(2017) John G. Doench   NATURE REVIEWS GENETICS

A p53-dependent response limits the viability of mammalian haploid cells

(2017) Teresa Olbrich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Parallel genome-wide screens identify synthetic viable interactions between the BLM helicase complex and Fanconi anemia

(2017) Martin Moder et al.   Nature Communications

Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens

(2017) Traver Hart et al.   G3-Genes Genomes Genetics

BAGEL: a computational framework for identifying essential genes from pooled library screens

(2016) Traver Hart et al.   BMC BIOINFORMATICS

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

Genome-wide CRISPR screens reveal a Wnt–FZD5 signaling circuit as a druggable vulnerability of RNF43-mutant pancreatic tumors

(2016) Zachary Steinhart et al.   NATURE MEDICINE

The Fanconi anaemia pathway: new players and new functions

(2016) Raphael Ceccaldi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

GenomeCRISPR - a database for high-throughput CRISPR/Cas9 screens

(2016) Benedikt Rauscher et al.   NUCLEIC ACIDS RESEARCH

CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells

(2016) S. John Liu et al.   SCIENCE

CRISPR Screens Provide a Comprehensive Assessment of Cancer Vulnerabilities but Generate False-Positive Hits for Highly Amplified Genomic Regions

(2016) D. M. Munoz et al.   Cancer Discovery

Genomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting

(2016) A. J. Aguirre et al.   Cancer Discovery

The Impact of Chromatin Dynamics on Cas9-Mediated Genome Editing in Human Cells

(2016) René M. Daer et al.   ACS Synthetic Biology

A CRISPR Dropout Screen Identifies Genetic Vulnerabilities and Therapeutic Targets in Acute Myeloid Leukemia

(2016) Konstantinos Tzelepis et al.   Cell Reports

Nucleosome breathing and remodeling constrain CRISPR-Cas9 function

(2016) R Stefan Isaac et al.   eLife

Nucleosomes impede Cas9 access to DNA in vivo and in vitro

(2016) Max A Horlbeck et al.   eLife

Genome-wide CRISPR Screen in a Mouse Model of Tumor Growth and Metastasis

(2015) Sidi Chen et al.   CELL

High-Resolution CRISPR Screens Reveal Fitness Genes and Genotype-Specific Cancer Liabilities

(2015) Traver Hart et al.   CELL

Discovery of cancer drug targets by CRISPR-Cas9 screening of protein domains

(2015) Junwei Shi et al.   NATURE BIOTECHNOLOGY

Orchestrating high-throughput genomic analysis with Bioconductor

(2015) Wolfgang Huber et al.   NATURE METHODS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Gene essentiality and synthetic lethality in haploid human cells

(2015) V. A. Blomen et al.   SCIENCE

Identification and characterization of essential genes in the human genome

(2015) T. Wang et al.   SCIENCE

Comparative Haploid Genetic Screens Reveal Divergent Pathways in the Biogenesis and Trafficking of Glycophosphatidylinositol-Anchored Proteins

(2015) Eric M. Davis et al.   Cell Reports

mixtools: AnRPackage for Analyzing Finite Mixture Models

(2015) Tatiana Benaglia et al.   Journal of Statistical Software

Measuring error rates in genomic perturbation screens: gold standards for human functional genomics

(2014) T. Hart et al.   Molecular Systems Biology

Rational design of highly active sgRNAs for CRISPR-Cas9–mediated gene inactivation

(2014) John G Doench et al.   NATURE BIOTECHNOLOGY

Improved vectors and genome-wide libraries for CRISPR screening

(2014) Neville E Sanjana et al.   NATURE METHODS

E-CRISP: fast CRISPR target site identification

(2014) Florian Heigwer et al.   NATURE METHODS

Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System

(2013) Baohui Chen et al.   CELL

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells

(2013) Ophir Shalem et al.   SCIENCE

Genetic Screens in Human Cells Using the CRISPR-Cas9 System

(2013) Tim Wang et al.   SCIENCE

5T4 oncofetal antigen is expressed in high risk of relapse childhood pre-B acute lymphoblastic leukemia and is associated with a more invasive and chemotactic phenotype

(2012) F V Castro et al.   LEUKEMIA

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Global gene disruption in human cells to assign genes to phenotypes by deep sequencing

(2011) Jan E Carette et al.   NATURE BIOTECHNOLOGY

The art and design of genetic screens: RNA interference

(2008) Michael Boutros et al.   NATURE REVIEWS GENETICS

Homogeneity and persistence of transgene expression by omitting antibiotic selection in cell line isolation

(2008) W. L. Kaufman et al.   NUCLEIC ACIDS RESEARCH

A One Pot, One Step, Precision Cloning Method with High Throughput Capability

(2008) Carola Engler et al.   PLoS One