Open Access
Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex
Silvana Konermann,Mark D. Brigham,Alexandro E. Trevino,Julia Joung,Clea Barcena,Patrick D. Hsu,Naomi Habib,Jonathan S. Gootenberg,Hiroshi Nishimasu,Osamu Nureki,Feng Zhang,Omar O. Abudayyeh +11 more
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The article was published on 2016-05-22 and is currently open access. It has received 1792 citations till now. The article focuses on the topics: CRISPR.read more
Citations
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Determination of local chromatin interactions using a combined CRISPR and peroxidase APEX2 system
Wenqing Qiu,Zhijiao Xu,Min Zhang,Dandan Zhang,Hui Fan,Li Taotao,Qianfeng Wang,Peiru Liu,Zaihua Zhu,Duo Du,Minjia Tan,Bo Wen,Yun Liu +12 more
TL;DR: It was shown that with specific small-guide RNA targets, CAPLOCUS could efficiently identify both repetitive genomic regions and single-copy genomic locus with high resolution and may be a useful approach for studying local interacting molecules at any given chromosomal location.
Journal ArticleDOI
In vivo locus-specific editing of the neuroepigenome
TL;DR: Recent efforts in using locus-specific neuroepigenome editing in vivo to define causal relationships between a single chromatin modification at a specific gene in a defined cell population and downstream measures at the molecular, cellular, circuit and behavioural levels are described.
Journal ArticleDOI
Repurposing type I-F CRISPR-Cas system as a transcriptional activation tool in human cells.
Yuxi Chen,Jiaqi Liu,Shengyao Zhi,Qi Zheng,Wenbin Ma,Junjiu Huang,Yizhi Liu,Dan Liu,Puping Liang,Zhou Songyang +9 more
TL;DR: The authors modify the Type I–F CRISPR–Cas system for transcriptional activation of gene expression by fusing transcription activation domain to Pseudomonas aeruginosa type I-F Cas proteins and achieving multiplexed gene activation with a crRNA array.
Journal ArticleDOI
Pooled extracellular receptor-ligand interaction screening using CRISPR activation
TL;DR: A cell-based genome-wide approach employing CRISPR activation to identify receptors for a defined ligand to enable extracellular receptor-ligand identification on a genome- wide scale is described.
Journal ArticleDOI
Engineering species-like barriers to sexual reproduction.
TL;DR: In this paper, the ACT1 promoter of the model organism Saccharomyces cerevisiae using a dCas9-based transcriptional activator was targeted to construct a "species-like" barrier to reproduction between two otherwise compatible populations.
References
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TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
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RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
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TL;DR: It is shown that accurate gene-level abundance estimates are best obtained with large numbers of short single-end reads, and estimates of the relative frequencies of isoforms within single genes may be improved through the use of paired- end reads, depending on the number of possible splice forms for each gene.
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Martin Jinek,Krzysztof Chylinski,Krzysztof Chylinski,Ines Fonfara,Michael H. Hauer,Jennifer A. Doudna,Emmanuelle Charpentier +6 more
TL;DR: This study reveals a family of endonucleases that use dual-RNAs for site-specific DNA cleavage and highlights the potential to exploit the system for RNA-programmable genome editing.
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The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity
Jordi Barretina,Giordano Caponigro,Nicolas Stransky,Kavitha Venkatesan,Adam A. Margolin,Adam A. Margolin,Sungjoon Kim,Christine D. Wilson,Joseph Lehar,Gregory V. Kryukov,Dmitriy Sonkin,Anupama Reddy,Manway Liu,Lauren Murray,Michael F. Berger,Michael F. Berger,John Monahan,Paula Morais,Jodi Meltzer,Adam Korejwa,Judit Jané-Valbuena,Judit Jané-Valbuena,Felipa A. Mapa,Joseph Thibault,Eva Bric-Furlong,Pichai Raman,Aaron Shipway,Ingo H. Engels,Jill Cheng,Guoying K. Yu,Jianjun Yu,Peter Aspesi,Melanie de Silva,Kalpana Jagtap,Michael D. Jones,Li Wang,Charlie Hatton,Emanuele Palescandolo,Supriya Gupta,Scott Mahan,Carrie Sougnez,Robert C. Onofrio,Ted Liefeld,Laura E. MacConaill,Wendy Winckler,Michael R. Reich,Nanxin Li,Jill P. Mesirov,Stacey Gabriel,Gad Getz,Kristin G. Ardlie,Vivien W. Chan,Vic E. Myer,Barbara L. Weber,Jeffrey A. Porter,Markus Warmuth,Peter Finan,Jennifer L. Harris,Matthew Meyerson,Matthew Meyerson,Todd R. Golub,Michael Morrissey,William R. Sellers,Robert Schlegel,Levi A. Garraway,Levi A. Garraway +65 more
TL;DR: The results indicate that large, annotated cell-line collections may help to enable preclinical stratification schemata for anticancer agents and the generation of genetic predictions of drug response in the preclinical setting and their incorporation into cancer clinical trial design could speed the emergence of ‘personalized’ therapeutic regimens.
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Molecular signatures database (MSigDB) 3.0
Arthur Liberzon,Aravind Subramanian,Reid M. Pinchback,Helga Thorvaldsdottir,Pablo Tamayo,Jill P. Mesirov +5 more
TL;DR: A new version of the database, MSigDB 3.0, is reported, with over 6700 gene sets, a complete revision of the collection of canonical pathways and experimental signatures from publications, enhanced annotations and upgrades to the web site.