A citation-based method for searching scientific literature

Jennifer Listgarten, Michael Weinstein, Benjamin P Kleinstiver, Alexander A Sousa, J Keith Joung, Jake Crawford, Kevin Gao, Luong Hoang, Melih Elibol, John G Doench, Nicolo Fusi. Nat Biomed Eng 2018
Times Cited: 104







List of co-cited articles
1123 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
66

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
62

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
47

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
46

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
756
45

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
43

CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo.
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
570
39

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
115
38


CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets.
Shengdar Q Tsai, Nhu T Nguyen, Jose Malagon-Lopez, Ved V Topkar, Martin J Aryee, J Keith Joung. Nat Methods 2017
339
32

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
32

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
32

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
842
32

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
31

Digenome-seq: genome-wide profiling of CRISPR-Cas9 off-target effects in human cells.
Daesik Kim, Sangsu Bae, Jeongbin Park, Eunji Kim, Seokjoong Kim, Hye Ryeong Yu, Jinha Hwang, Jong-Il Kim, Jin-Soo Kim. Nat Methods 2015
577
31


Rationally engineered Cas9 nucleases with improved specificity.
Ian M Slaymaker, Linyi Gao, Bernd Zetsche, David A Scott, Winston X Yan, Feng Zhang. Science 2016
28

Genetic screens in human cells using the CRISPR-Cas9 system.
Tim Wang, Jenny J Wei, David M Sabatini, Eric S Lander. Science 2014
28

Genome-wide detection of DNA double-stranded breaks induced by engineered nucleases.
Richard L Frock, Jiazhi Hu, Robin M Meyers, Yu-Jui Ho, Erina Kii, Frederick W Alt. Nat Biotechnol 2015
403
27

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
915
27

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
26

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
429
25

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
25

E-CRISP: fast CRISPR target site identification.
Florian Heigwer, Grainne Kerr, Michael Boutros. Nat Methods 2014
447
24

Mapping the genomic landscape of CRISPR-Cas9 cleavage.
Peter Cameron, Chris K Fuller, Paul D Donohoue, Brittnee N Jones, Matthew S Thompson, Matthew M Carter, Scott Gradia, Bastien Vidal, Elizabeth Garner, Euan M Slorach,[...]. Nat Methods 2017
181
24

Deep learning improves prediction of CRISPR-Cpf1 guide RNA activity.
Hui Kwon Kim, Seonwoo Min, Myungjae Song, Soobin Jung, Jae Woo Choi, Younggwang Kim, Sangeun Lee, Sungroh Yoon, Hyongbum Henry Kim. Nat Biotechnol 2018
104
24


Enhanced proofreading governs CRISPR-Cas9 targeting accuracy.
Janice S Chen, Yavuz S Dagdas, Benjamin P Kleinstiver, Moira M Welch, Alexander A Sousa, Lucas B Harrington, Samuel H Sternberg, J Keith Joung, Ahmet Yildiz, Jennifer A Doudna. Nature 2017
548
23

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
22

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
287
22

In vivo genome editing using Staphylococcus aureus Cas9.
F Ann Ran, Le Cong, Winston X Yan, David A Scott, Jonathan S Gootenberg, Andrea J Kriz, Bernd Zetsche, Ophir Shalem, Xuebing Wu, Kira S Makarova,[...]. Nature 2015
21

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
21

Cpf1 is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system.
Bernd Zetsche, Jonathan S Gootenberg, Omar O Abudayyeh, Ian M Slaymaker, Kira S Makarova, Patrick Essletzbichler, Sara E Volz, Julia Joung, John van der Oost, Aviv Regev,[...]. Cell 2015
21

Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression.
Lei S Qi, Matthew H Larson, Luke A Gilbert, Jennifer A Doudna, Jonathan S Weissman, Adam P Arkin, Wendell A Lim. Cell 2013
20

Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach.
Raj Chari, Prashant Mali, Mark Moosburner, George M Church. Nat Methods 2015
223
20

CRISPR/Cas9 systems have off-target activity with insertions or deletions between target DNA and guide RNA sequences.
Yanni Lin, Thomas J Cradick, Matthew T Brown, Harshavardhan Deshmukh, Piyush Ranjan, Neha Sarode, Brian M Wile, Paula M Vertino, Frank J Stewart, Gang Bao. Nucleic Acids Res 2014
360
20

Evolved Cas9 variants with broad PAM compatibility and high DNA specificity.
Johnny H Hu, Shannon M Miller, Maarten H Geurts, Weixin Tang, Liwei Chen, Ning Sun, Christina M Zeina, Xue Gao, Holly A Rees, Zhi Lin,[...]. Nature 2018
708
19

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
19

Analysis of off-target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases.
Seung Woo Cho, Sojung Kim, Yongsub Kim, Jiyeon Kweon, Heon Seok Kim, Sangsu Bae, Jin-Soo Kim. Genome Res 2014
851
19

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
18

WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system.
Nathan Wong, Weijun Liu, Xiaowei Wang. Genome Biol 2015
150
18

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
18

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
232
18

Unbiased detection of off-target cleavage by CRISPR-Cas9 and TALENs using integrase-defective lentiviral vectors.
Xiaoling Wang, Yebo Wang, Xiwei Wu, Jinhui Wang, Yingjia Wang, Zhaojun Qiu, Tammy Chang, He Huang, Ren-Jang Lin, Jiing-Kuan Yee. Nat Biotechnol 2015
274
17

CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes.
Luke A Gilbert, Matthew H Larson, Leonardo Morsut, Zairan Liu, Gloria A Brar, Sandra E Torres, Noam Stern-Ginossar, Onn Brandman, Evan H Whitehead, Jennifer A Doudna,[...]. Cell 2013
17

Cas9-chromatin binding information enables more accurate CRISPR off-target prediction.
Ritambhara Singh, Cem Kuscu, Aaron Quinlan, Yanjun Qi, Mazhar Adli. Nucleic Acids Res 2015
114
17

Predicting the mutations generated by repair of Cas9-induced double-strand breaks.
Felicity Allen, Luca Crepaldi, Clara Alsinet, Alexander J Strong, Vitalii Kleshchevnikov, Pietro De Angeli, Petra Páleníková, Anton Khodak, Vladimir Kiselev, Michael Kosicki,[...]. Nat Biotechnol 2018
190
17

GuideScan software for improved single and paired CRISPR guide RNA design.
Alexendar R Perez, Yuri Pritykin, Joana A Vidigal, Sagar Chhangawala, Lee Zamparo, Christina S Leslie, Andrea Ventura. Nat Biotechnol 2017
100
16

Unbiased detection of CRISPR off-targets in vivo using DISCOVER-Seq.
Beeke Wienert, Stacia K Wyman, Christopher D Richardson, Charles D Yeh, Pinar Akcakaya, Michelle J Porritt, Michaela Morlock, Jonathan T Vu, Katelynn R Kazane, Hannah L Watry,[...]. Science 2019
157
16

Nucleotide-resolution DNA double-strand break mapping by next-generation sequencing.
Nicola Crosetto, Abhishek Mitra, Maria Joao Silva, Magda Bienko, Norbert Dojer, Qi Wang, Elif Karaca, Roberto Chiarle, Magdalena Skrzypczak, Krzysztof Ginalski,[...]. Nat Methods 2013
277
15


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.