On-target activity predictions enable improved CRISPR–dCas9 screens in bacteria

Editing the microbiome the CRISPR way

(2019) Gayetri Ramachandran et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The post-PAM interaction of RNA-guided spCas9 with DNA dictates its target binding and dissociation

(2019) Qian Zhang et al.   Science Advances

Logomaker: beautiful sequence logos in Python

(2019) Ammar Tareen et al.   BIOINFORMATICS

Enhanced Bacterial Immunity and Mammalian Genome Editing via RNA-Polymerase-Mediated Dislodging of Cas9 from Double-Strand DNA Breaks

(2018) Ryan Clarke et al.   MOLECULAR CELL

Tuning dCas9's ability to block transcription enables robust, noiseless knockdown of bacterial genes

(2018) Antoine Vigouroux et al.   Molecular Systems Biology

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

The Essential Genome of Escherichia coli K-12

(2018) Emily C. A. Goodall et al.   mBio

Pooled CRISPR interference screening enables genome-scale functional genomics study in bacteria with superior performance

(2018) Tianmin Wang et al.   Nature Communications

A CRISPRi screen in E. coli reveals sequence-specific toxicity of dCas9

(2018) Lun Cui et al.   Nature Communications

Genome-wide CRISPR-dCas9 screens in E. coli identify essential genes and phage host factors

(2018) François Rousset et al.   PLoS Genetics

Enabling genetic analysis of diverse bacteria with Mobile-CRISPRi

(2018) Jason M. Peters et al.   Nature Microbiology

High‐throughput CRISPRi phenotyping identifies new essential genes in Streptococcus pneumoniae

(2017) Xue Liu et al.   Molecular Systems Biology

A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria

(2016) Jason M. Peters et al.   CELL

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

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

(2016) Max A Horlbeck et al.   eLife

CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation: Fig. 1.

(2015) Honglei Liu et al.   BIOINFORMATICS

CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo

(2015) Miguel A Moreno-Mateos et al.   NATURE METHODS

DNA interrogation by the CRISPR RNA-guided endonuclease Cas9

(2014) Samuel H. Sternberg et al.   NATURE

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

(2014) John G Doench et al.   NATURE BIOTECHNOLOGY

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

RNA-guided editing of bacterial genomes using CRISPR-Cas systems

(2013) Wenyan Jiang et al.   NATURE BIOTECHNOLOGY

Transposon insertion sequencing: a new tool for systems-level analysis of microorganisms

(2013) Tim van Opijnen et al.   NATURE REVIEWS MICROBIOLOGY

Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system

(2013) David Bikard et al.   NUCLEIC ACIDS RESEARCH

Short motif sequences determine the targets of the prokaryotic CRISPR defence system

(2009)   MICROBIOLOGY-SGM

Enzymatic assembly of DNA molecules up to several hundred kilobases

(2009) Daniel G Gibson et al.   NATURE METHODS