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Profiling the genetic determinants of chromatin accessibility with scalable single-cell CRISPR screens
The effects of gene knockouts on chromatin accessibility are measured with single-cell CRISPR screens.
- Noa Liscovitch-Brauer
- , Antonino Montalbano
- & Neville E. Sanjana
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Article |
Predicting the efficiency of prime editing guide RNAs in human cells
Prime editing is optimized by a method to choose the most efficient guide RNA.
- Hui Kwon Kim
- , Goosang Yu
- & Hyongbum Henry Kim
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Article |
Massively parallel kinetic profiling of natural and engineered CRISPR nucleases
The enzymatic properties of RNA-guided nucleases are revealed through massively parallel analysis.
- Stephen K. Jones Jr
- , John A. Hawkins
- & Ilya J. Finkelstein
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Article |
Inducible de novo expression of neoantigens in tumor cells and mice
A system to express neoantigens in tumor cells and mice circumvents central T cell tolerance.
- Martina Damo
- , Brittany Fitzgerald
- & Nikhil S. Joshi
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Letter |
Sequence-specific prediction of the efficiencies of adenine and cytosine base editors
The activity of adenine or cytosine base editors at specific target nucleotides is predicted computationally.
- Myungjae Song
- , Hui Kwon Kim
- & Hyongbum Henry Kim
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Article |
Programmable m6A modification of cellular RNAs with a Cas13-directed methyltransferase
The most abundant RNA modification in humans, m6A, can be installed at specified RNA sequences in cells, enabling functional studies.
- Christopher Wilson
- , Peter J. Chen
- & David R. Liu
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Review Article |
Genome editing with CRISPR–Cas nucleases, base editors, transposases and prime editors
A growing arsenal of CRISPR-based tools enables increasingly sophisticated genome editing applications.
- Andrew V. Anzalone
- , Luke W. Koblan
- & David R. Liu
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Article |
Prediction of the sequence-specific cleavage activity of Cas9 variants
Deep-learning models predict the Cas9 variant with optimal activity and specificity for any target sequence.
- Nahye Kim
- , Hui Kwon Kim
- & Hyongbum Henry Kim
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Brief Communication |
Base editors for simultaneous introduction of C-to-T and A-to-G mutations
Base editors that modify both adenosine and cytosine broaden the potential applications of base editing.
- Rina C. Sakata
- , Soh Ishiguro
- & Nozomu Yachie
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Brief Communication |
Dual base editor catalyzes both cytosine and adenine base conversions in human cells
Base editors that modify both adenine and cytosine broaden the potential applications of base editing.
- Xiaohui Zhang
- , Biyun Zhu
- & Dali Li
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Brief Communication |
A dual-deaminase CRISPR base editor enables concurrent adenine and cytosine editing
A base editor that concurrently modifies both adenine and cytosine broadens the potential applications of base editing.
- Julian Grünewald
- , Ronghao Zhou
- & J. Keith Joung
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Review Article |
Design and analysis of CRISPR–Cas experiments
Hanna and Doench review the computational methods and tools that have become indispensable for planning and analyzing CRISPR experiments.
- Ruth E. Hanna
- & John G. Doench
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Matters Arising |
Reply to: Fitness effects of CRISPR/Cas9-targeting of long noncoding RNA genes
- Ying Liu
- , Zhiheng Liu
- & Wensheng Wei
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Article |
Evaluation and minimization of Cas9-independent off-target DNA editing by cytosine base editors
Methods to efficiently detect Cas9-independent cytosine base editor off-target activity enable the identification and development of variants with minimal off-target editing and robust on-target editing.
- Jordan L. Doman
- , Aditya Raguram
- & David R. Liu
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Article |
Continuous evolution of SpCas9 variants compatible with non-G PAMs
PAM sequences without G bases can be edited with SpCas9 variants that were continuously evolved in the laboratory.
- Shannon M. Miller
- , Tina Wang
- & David R. Liu
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Letter |
Targeted, random mutagenesis of plant genes with dual cytosine and adenine base editors
Saturation mutagenesis using dual base editors improves the herbicide resistance of rice.
- Chao Li
- , Rui Zhang
- & Caixia Gao
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News & Views |
Fast-track for engineered plants
A rapid method to introduce gene edits advances plant science.
- Oliver Xiaoou Dong
- & Pamela C. Ronald
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Brief Communication |
Efficient, continuous mutagenesis in human cells using a pseudo-random DNA editor
Efficient diversification of DNA sequences is enabled by a T7 RNA polymerase fused to a cytidine deaminase.
- Haiqi Chen
- , Sophia Liu
- & Fei Chen
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Letter |
Polymer-stabilized Cas9 nanoparticles and modified repair templates increase genome editing efficiency
Precise genome editing is made more efficient by stabilizing Cas9 and enhancing shuttling to the nucleus.
- David N. Nguyen
- , Theodore L. Roth
- & Alexander Marson
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Letter |
Harnessing type I CRISPR–Cas systems for genome engineering in human cells
A type I CRISPR–Cas system, rather than the conventional type II CRISPR systems, is adapted for gene editing by fusing Cascade to the FokI nuclease domain.
- Peter Cameron
- , Mary M. Coons
- & Samuel H. Sternberg
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Letter |
Adenine base editors catalyze cytosine conversions in human cells
In addition to causing A-to-G base transitions, adenine base editors also cause C base substitutions
- Heon Seok Kim
- , You Kyeong Jeong
- & Sangsu Bae
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Article |
In vivo CRISPR screening in CD8 T cells with AAV–Sleeping Beauty hybrid vectors identifies membrane targets for improving immunotherapy for glioblastoma
A hybrid AAV–transposon CRISPR approach enables large-scale in vivo screens in T cells and identifies potential targets for immunotherapy.
- Lupeng Ye
- , Jonathan J. Park
- & Sidi Chen
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Letter |
Hidden antibiotics in actinomycetes can be identified by inactivation of gene clusters for common antibiotics
Dereplication by inactivation of antibiotic production clusters in actinomycetes enables antibiotic discovery.
- Elizabeth J. Culp
- , Grace Yim
- & Gerard D. Wright
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News & Views |
Jumping at the chance for precise DNA integration
CRISPR–Cas-associated transposases enable targeted integration of new sequences into genomes.
- Jennifer B. Kwon
- & Charles A. Gersbach
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Article |
Continuous evolution of base editors with expanded target compatibility and improved activity
Improved base editors are generated by continuous evolution.
- B W. Thuronyi
- , Luke W. Koblan
- & David R. Liu
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Article |
Programmable RNA editing by recruiting endogenous ADAR using engineered RNAs
Cellular RNAs are edited with high specificity using engineered ADAR-recruiting RNAs.
- Liang Qu
- , Zongyi Yi
- & Wensheng Wei
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Review Article |
Synthetic evolution
From unbiased mutagenesis to precision modification, in genes or whole genomes, researchers have a panoply of tools to direct evolution.
- Anna J. Simon
- , Simon d’Oelsnitz
- & Andrew D. Ellington
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News & Views |
CRISPR–Cas9 strikes out in cassava
Transgenic cassava expressing Cas9 is not protected from geminivirus infection.
- Edward P. Rybicki
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Review Article |
Gene editing for immune cell therapies
Bailey and Maus discuss cutting-edge developments in engineering immune cells towards expanding the reach and efficacy of adoptive cell therapies in cancer and beyond.
- Stefanie R. Bailey
- & Marcela V. Maus
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Letter |
Circularly permuted and PAM-modified Cas9 variants broaden the targeting scope of base editors
Wider editing windows and different PAM requirements enable a broad set of genomic positions to be targeted with A and C base editors.
- Tony P. Huang
- , Kevin T. Zhao
- & David R. Liu
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Letter |
Engineered CRISPR–Cas12a variants with increased activities and improved targeting ranges for gene, epigenetic and base editing
Structure-guided protein engineering of Cas12a yields variants that have increased activity and that can edit sites with previously inaccessible PAMs.
- Benjamin P. Kleinstiver
- , Alexander A. Sousa
- & J. Keith Joung
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Article |
Predicting the mutations generated by repair of Cas9-induced double-strand breaks
Analysis of more than a billion repair outcomes yields an algorithm that predicts Cas9-induced mutations.
- Felicity Allen
- , Luca Crepaldi
- & Leopold Parts
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Correspondence |
A call for science-based review of the European court's decision on gene-edited crops
- Fyodor D Urnov
- , Pamela C Ronald
- & Dana Carroll
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Brief Communication |
Improving cytidine and adenine base editors by expression optimization and ancestral reconstruction
Optimization of cytidine and adenine base editors increases editing efficiency.
- Luke W Koblan
- , Jordan L Doman
- & David R Liu
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Letter |
Genome editing of upstream open reading frames enables translational control in plants
CRISPR/Cas9 editing of upstream open reading frames (uORFs) in Arabidopsis thaliana and lettuce enables upregulation of translation of plant genes.
- Huawei Zhang
- , Xiaomin Si
- & Caixia Gao
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Letter |
Optimized base editors enable efficient editing in cells, organoids and mice
The efficiency of base editing is substantially increased by optimizing expression and nuclear localization of the editing enzymes.
- Maria Paz Zafra
- , Emma M Schatoff
- & Lukas E Dow
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Article
| Open AccessA CRISPR–Cas9 gene drive targeting doublesex causes complete population suppression in caged Anopheles gambiae mosquitoes
Complete population collapse of malaria vector Anopheles gambiae in cages is achieved using a gene drive that targets doublesex.
- Kyros Kyrou
- , Andrew M Hammond
- & Andrea Crisanti
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Brief Communication |
Efficient base editing in methylated regions with a human APOBEC3A-Cas9 fusion
Increased efficiency of base editing in methylated DNA using human APOBEC3A as a deaminase.
- Xiao Wang
- , Jianan Li
- & Li Yang
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News & Views |
Unexpected CRISPR on-target effects
Cas9 can induce extensive on-target damage, including large deletions, inversions, and insertions.
- Hyunji Lee
- & Jin-Soo Kim
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Article |
Meganuclease targeting of PCSK9 in macaque liver leads to stable reduction in serum cholesterol
Genome editing in non-human primates with a PCSK9-targeted meganuclease lowers cholesterol levels.
- Lili Wang
- , Jeff Smith
- & James M Wilson
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Brief Communication |
Genome-scale engineering of Saccharomyces cerevisiae with single-nucleotide precision
Efficient genome-scale precision editing in yeast is enabled using CRISPR–Cas9 and homology-directed-repair.
- Zehua Bao
- , Mohammad HamediRad
- & Huimin Zhao
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Letter |
Adenine base editing in mouse embryos and an adult mouse model of Duchenne muscular dystrophy
Adenine base editing is used to treat a mouse model of Duchenne muscular dystrophy and to create defined mutations in mouse embryos.
- Seuk-Min Ryu
- , Taeyoung Koo
- & Jin-Soo Kim
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Letter |
Simultaneous lineage tracing and cell-type identification using CRISPR–Cas9-induced genetic scars
LINNAEUS reconstructs developmental lineages using RNA sequencing data and lineage markers from the same single cells.
- Bastiaan Spanjaard
- , Bo Hu
- & Jan Philipp Junker
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Article |
Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain
scGESTALT enables large-scale characterization of cell types and lineage relationships during vertebrate brain development.
- Bushra Raj
- , Daniel E Wagner
- & Alexander F Schier
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Brief Communication |
Base editing with a Cpf1–cytidine deaminase fusion
A new fusion protein enables precise editing of single bases in A/T-rich regions of the human genome.
- Xiaosa Li
- , Ying Wang
- & Jia Chen
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Letter |
A highly specific SpCas9 variant is identified by in vivo screening in yeast
Evolved SpCas9 variant evoCas9 has improved specificity and retains near wild-type on-target activity.
- Antonio Casini
- , Michele Olivieri
- & Anna Cereseto
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Brief Communication |
Deep learning improves prediction of CRISPR–Cpf1 guide RNA activity
Using deep learning to combine target sequence and chromatin accessibility data boosts the accuracy of CRISPR–Cpf1 guide RNA activity
- Hui Kwon Kim
- , Seonwoo Min
- & Hyongbum (Henry) Kim
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News & Views |
Viruses leave their stamp on single cells
A method for 'stamping' viruses achieves efficient transduction of single target cells in cultured tissues and in the mouse brain.
- Ede A Rancz
- & Andreas T Schaefer