A citation-based method for searching scientific literature

Miguel A Moreno-Mateos, Charles E Vejnar, Jean-Denis Beaudoin, Juan P Fernandez, Emily K Mis, Mustafa K Khokha, Antonio J Giraldez. Nat Methods 2015
Times Cited: 556







List of co-cited articles
813 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9.
John G Doench, Nicolo Fusi, Meagan Sullender, Mudra Hegde, Emma W Vaimberg, Katherine F Donovan, Ian Smith, Zuzana Tothova, Craig Wilen, Robert Orchard,[...]. Nat Biotechnol 2016
29

A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity.
Martin Jinek, Krzysztof Chylinski, Ines Fonfara, Michael Hauer, Jennifer A Doudna, Emmanuelle Charpentier. Science 2012
26

Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation.
John G Doench, Ella Hartenian, Daniel B Graham, Zuzana Tothova, Mudra Hegde, Ian Smith, Meagan Sullender, Benjamin L Ebert, Ramnik J Xavier, David E Root. Nat Biotechnol 2014
828
24

Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPOR.
Maximilian Haeussler, Kai Schönig, Hélène Eckert, Alexis Eschstruth, Joffrey Mianné, Jean-Baptiste Renaud, Sylvie Schneider-Maunoury, Alena Shkumatava, Lydia Teboul, Jim Kent,[...]. Genome Biol 2016
737
22

DNA targeting specificity of RNA-guided Cas9 nucleases.
Patrick D Hsu, David A Scott, Joshua A Weinstein, F Ann Ran, Silvana Konermann, Vineeta Agarwala, Yinqing Li, Eli J Fine, Xuebing Wu, Ophir Shalem,[...]. Nat Biotechnol 2013
20

Genetic screens in human cells using the CRISPR-Cas9 system.
Tim Wang, Jenny J Wei, David M Sabatini, Eric S Lander. Science 2014
20

Multiplex genome engineering using CRISPR/Cas systems.
Le Cong, F Ann Ran, David Cox, Shuailiang Lin, Robert Barretto, Naomi Habib, Patrick D Hsu, Xuebing Wu, Wenyan Jiang, Luciano A Marraffini,[...]. Science 2013
19

Sequence determinants of improved CRISPR sgRNA design.
Han Xu, Tengfei Xiao, Chen-Hao Chen, Wei Li, Clifford A Meyer, Qiu Wu, Di Wu, Le Cong, Feng Zhang, Jun S Liu,[...]. Genome Res 2015
280
18

Efficient multiplex biallelic zebrafish genome editing using a CRISPR nuclease system.
Li-En Jao, Susan R Wente, Wenbiao Chen. Proc Natl Acad Sci U S A 2013
766
17

Easy quantitative assessment of genome editing by sequence trace decomposition.
Eva K Brinkman, Tao Chen, Mario Amendola, Bas van Steensel. Nucleic Acids Res 2014
990
17

Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach.
Raj Chari, Prashant Mali, Mark Moosburner, George M Church. Nat Methods 2015
220
16

Search-and-replace genome editing without double-strand breaks or donor DNA.
Andrew V Anzalone, Peyton B Randolph, Jessie R Davis, Alexander A Sousa, Luke W Koblan, Jonathan M Levy, Peter J Chen, Christopher Wilson, Gregory A Newby, Aditya Raguram,[...]. Nature 2019
15

WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system.
Nathan Wong, Weijun Liu, Xiaowei Wang. Genome Biol 2015
146
15

CHOPCHOP v3: expanding the CRISPR web toolbox beyond genome editing.
Kornel Labun, Tessa G Montague, Maximilian Krause, Yamila N Torres Cleuren, Håkon Tjeldnes, Eivind Valen. Nucleic Acids Res 2019
311
14

Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage.
Alexis C Komor, Yongjoo B Kim, Michael S Packer, John A Zuris, David R Liu. Nature 2016
14

Efficient genome editing in zebrafish using a CRISPR-Cas system.
Woong Y Hwang, Yanfang Fu, Deepak Reyon, Morgan L Maeder, Shengdar Q Tsai, Jeffry D Sander, Randall T Peterson, J-R Joanna Yeh, J Keith Joung. Nat Biotechnol 2013
14

Highly Efficient CRISPR-Cas9-Based Methods for Generating Deletion Mutations and F0 Embryos that Lack Gene Function in Zebrafish.
Kazuyuki Hoshijima, Michael J Jurynec, Dana Klatt Shaw, Ashley M Jacobi, Mark A Behlke, David Jonah Grunwald. Dev Cell 2019
78
17

Efficient mutagenesis by Cas9 protein-mediated oligonucleotide insertion and large-scale assessment of single-guide RNAs.
James A Gagnon, Eivind Valen, Summer B Thyme, Peng Huang, Laila Akhmetova, Andrea Pauli, Tessa G Montague, Steven Zimmerman, Constance Richter, Alexander F Schier. PLoS One 2014
496
14

High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells.
Yanfang Fu, Jennifer A Foden, Cyd Khayter, Morgan L Maeder, Deepak Reyon, J Keith Joung, Jeffry D Sander. Nat Biotechnol 2013
13

A Rapid Method for Directed Gene Knockout for Screening in G0 Zebrafish.
Roland S Wu, Ian I Lam, Hilary Clay, Daniel N Duong, Rahul C Deo, Shaun R Coughlin. Dev Cell 2018
118
13

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
12

E-CRISP: fast CRISPR target site identification.
Florian Heigwer, Grainne Kerr, Michael Boutros. Nat Methods 2014
436
12

RNA-guided human genome engineering via Cas9.
Prashant Mali, Luhan Yang, Kevin M Esvelt, John Aach, Marc Guell, James E DiCarlo, Julie E Norville, George M Church. Science 2013
12

Predictable and precise template-free CRISPR editing of pathogenic variants.
Max W Shen, Mandana Arbab, Jonathan Y Hsu, Daniel Worstell, Sannie J Culbertson, Olga Krabbe, Christopher A Cassa, David R Liu, David K Gifford, Richard I Sherwood. Nature 2018
221
12

DeepCRISPR: optimized CRISPR guide RNA design by deep learning.
Guohui Chuai, Hanhui Ma, Jifang Yan, Ming Chen, Nanfang Hong, Dongyu Xue, Chi Zhou, Chenyu Zhu, Ke Chen, Bin Duan,[...]. Genome Biol 2018
110
11

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.
Shengdar Q Tsai, Zongli Zheng, Nhu T Nguyen, Matthew Liebers, Ved V Topkar, Vishal Thapar, Nicolas Wyvekens, Cyd Khayter, A John Iafrate, Long P Le,[...]. Nat Biotechnol 2015
11


Optimized CRISPR guide RNA design for two high-fidelity Cas9 variants by deep learning.
Daqi Wang, Chengdong Zhang, Bei Wang, Bin Li, Qiang Wang, Dong Liu, Hongyan Wang, Yan Zhou, Leming Shi, Feng Lan,[...]. Nat Commun 2019
62
17

Genome-scale CRISPR-Cas9 knockout screening in human cells.
Ophir Shalem, Neville E Sanjana, Ella Hartenian, Xi Shi, David A Scott, Tarjei Mikkelson, Dirk Heckl, Benjamin L Ebert, David E Root, John G Doench,[...]. Science 2014
11

Prediction of off-target activities for the end-to-end design of CRISPR guide RNAs.
Jennifer Listgarten, Michael Weinstein, Benjamin P Kleinstiver, Alexander A Sousa, J Keith Joung, Jake Crawford, Kevin Gao, Luong Hoang, Melih Elibol, John G Doench,[...]. Nat Biomed Eng 2018
99
10

High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity.
Vikram Pattanayak, Steven Lin, John P Guilinger, Enbo Ma, Jennifer A Doudna, David R Liu. Nat Biotechnol 2013
898
10

CCTop: An Intuitive, Flexible and Reliable CRISPR/Cas9 Target Prediction Tool.
Manuel Stemmer, Thomas Thumberger, Maria Del Sol Keyer, Joachim Wittbrodt, Juan L Mateo. PLoS One 2015
414
10

CHOPCHOP v2: a web tool for the next generation of CRISPR genome engineering.
Kornel Labun, Tessa G Montague, James A Gagnon, Summer B Thyme, Eivind Valen. Nucleic Acids Res 2016
454
10

SpCas9 activity prediction by DeepSpCas9, a deep learning-based model with high generalization performance.
Hui Kwon Kim, Younggwang Kim, Sungtae Lee, Seonwoo Min, Jung Yoon Bae, Jae Woo Choi, Jinman Park, Dongmin Jung, Sungroh Yoon, Hyongbum Henry Kim. Sci Adv 2019
38
26

High-throughput gene targeting and phenotyping in zebrafish using CRISPR/Cas9.
Gaurav K Varshney, Wuhong Pei, Matthew C LaFave, Jennifer Idol, Lisha Xu, Viviana Gallardo, Blake Carrington, Kevin Bishop, MaryPat Jones, Mingyu Li,[...]. Genome Res 2015
269
10

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
10

Fiji: an open-source platform for biological-image analysis.
Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid,[...]. Nat Methods 2012
10

Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity.
F Ann Ran, Patrick D Hsu, Chie-Yu Lin, Jonathan S Gootenberg, Silvana Konermann, Alexandro E Trevino, David A Scott, Azusa Inoue, Shogo Matoba, Yi Zhang,[...]. Cell 2013
9

DNA interrogation by the CRISPR RNA-guided endonuclease Cas9.
Samuel H Sternberg, Sy Redding, Martin Jinek, Eric C Greene, Jennifer A Doudna. Nature 2014
964
9


Programmable base editing of A•T to G•C in genomic DNA without DNA cleavage.
Nicole M Gaudelli, Alexis C Komor, Holly A Rees, Michael S Packer, Ahmed H Badran, David I Bryson, David R Liu. Nature 2017
9

High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects.
Benjamin P Kleinstiver, Vikram Pattanayak, Michelle S Prew, Shengdar Q Tsai, Nhu T Nguyen, Zongli Zheng, J Keith Joung. Nature 2016
9

Maximizing mutagenesis with solubilized CRISPR-Cas9 ribonucleoprotein complexes.
Alexa Burger, Helen Lindsay, Anastasia Felker, Christopher Hess, Carolin Anders, Elena Chiavacci, Jonas Zaugg, Lukas M Weber, Raul Catena, Martin Jinek,[...]. Development 2016
148
9

High-Resolution CRISPR Screens Reveal Fitness Genes and Genotype-Specific Cancer Liabilities.
Traver Hart, Megha Chandrashekhar, Michael Aregger, Zachary Steinhart, Kevin R Brown, Graham MacLeod, Monika Mis, Michal Zimmermann, Amelie Fradet-Turcotte, Song Sun,[...]. Cell 2015
729
9

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation.
Luke A Gilbert, Max A Horlbeck, Britt Adamson, Jacqueline E Villalta, Yuwen Chen, Evan H Whitehead, Carla Guimaraes, Barbara Panning, Hidde L Ploegh, Michael C Bassik,[...]. Cell 2014
9

Refined sgRNA efficacy prediction improves large- and small-scale CRISPR-Cas9 applications.
Maurice Labuhn, Felix F Adams, Michelle Ng, Sabine Knoess, Axel Schambach, Emmanuelle M Charpentier, Adrian Schwarzer, Juan L Mateo, Jan-Henning Klusmann, Dirk Heckl. Nucleic Acids Res 2018
85
10

Engineered CRISPR-Cas9 nucleases with altered PAM specificities.
Benjamin P Kleinstiver, Michelle S Prew, Shengdar Q Tsai, Ved V Topkar, Nhu T Nguyen, Zongli Zheng, Andrew P W Gonzales, Zhuyun Li, Randall T Peterson, Jing-Ruey Joanna Yeh,[...]. Nature 2015
874
8

Crystal structure of Cas9 in complex with guide RNA and target DNA.
Hiroshi Nishimasu, F Ann Ran, Patrick D Hsu, Silvana Konermann, Soraya I Shehata, Naoshi Dohmae, Ryuichiro Ishitani, Feng Zhang, Osamu Nureki. Cell 2014
921
8

Improving CRISPR-Cas nuclease specificity using truncated guide RNAs.
Yanfang Fu, Jeffry D Sander, Deepak Reyon, Vincent M Cascio, J Keith Joung. Nat Biotechnol 2014
8

Stages of embryonic development of the zebrafish.
C B Kimmel, W W Ballard, S R Kimmel, B Ullmann, T F Schilling. Dev Dyn 1995
8


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.