A citation-based method for searching scientific literature

Jakob T Rostøl, Wei Xie, Vitaly Kuryavyi, Pascal Maguin, Kevin Kao, Ruby Froom, Dinshaw J Patel, Luciano A Marraffini. Nature 2021
Times Cited: 10







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



Times Cited
  Times     Co-cited
Similarity


Type III CRISPR-Cas systems produce cyclic oligoadenylate second messengers.
Ole Niewoehner, Carmela Garcia-Doval, Jakob T Rostøl, Christian Berk, Frank Schwede, Laurent Bigler, Jonathan Hall, Luciano A Marraffini, Martin Jinek. Nature 2017
169
100

A cyclic oligonucleotide signaling pathway in type III CRISPR-Cas systems.
Migle Kazlauskiene, Georgij Kostiuk, Česlovas Venclovas, Gintautas Tamulaitis, Virginijus Siksnys. Science 2017
172
100

Structure and mechanism of a Type III CRISPR defence DNA nuclease activated by cyclic oligoadenylate.
Stephen A McMahon, Wenlong Zhu, Shirley Graham, Robert Rambo, Malcolm F White, Tracey M Gloster. Nat Commun 2020
33
90

Activation and self-inactivation mechanisms of the cyclic oligoadenylate-dependent CRISPR ribonuclease Csm6.
Carmela Garcia-Doval, Frank Schwede, Christian Berk, Jakob T Rostøl, Ole Niewoehner, Oliver Tejero, Jonathan Hall, Luciano A Marraffini, Martin Jinek. Nat Commun 2020
27
90

Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity.
Rebecca K Lau, Qiaozhen Ye, Erica A Birkholz, Kyle R Berg, Lucas Patel, Ian T Mathews, Jeramie D Watrous, Kaori Ego, Aaron T Whiteley, Brianna Lowey,[...]. Mol Cell 2020
45
90


A Type III CRISPR Ancillary Ribonuclease Degrades Its Cyclic Oligoadenylate Activator.
Januka S Athukoralage, Shirley Graham, Sabine Grüschow, Christophe Rouillon, Malcolm F White. J Mol Biol 2019
27
70

Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants.
Kira S Makarova, Yuri I Wolf, Jaime Iranzo, Sergey A Shmakov, Omer S Alkhnbashi, Stan J J Brouns, Emmanuelle Charpentier, David Cheng, Daniel H Haft, Philippe Horvath,[...]. Nat Rev Microbiol 2020
364
70

Spatiotemporal Control of Type III-A CRISPR-Cas Immunity: Coupling DNA Degradation with the Target RNA Recognition.
Migle Kazlauskiene, Gintautas Tamulaitis, Georgij Kostiuk, Česlovas Venclovas, Virginijus Siksnys. Mol Cell 2016
121
60

Ring nucleases deactivate type III CRISPR ribonucleases by degrading cyclic oligoadenylate.
Januka S Athukoralage, Christophe Rouillon, Shirley Graham, Sabine Grüschow, Malcolm F White. Nature 2018
55
60

Control of cyclic oligoadenylate synthesis in a type III CRISPR system.
Christophe Rouillon, Januka S Athukoralage, Shirley Graham, Sabine Grüschow, Malcolm F White. Elife 2018
61
60

Structure of Csx1-cOA4 complex reveals the basis of RNA decay in Type III-B CRISPR-Cas.
Rafael Molina, Stefano Stella, Mingxia Feng, Nicholas Sofos, Vykintas Jauniskis, Irina Pozdnyakova, Blanca López-Méndez, Qunxin She, Guillermo Montoya. Nat Commun 2019
32
60

Co-transcriptional DNA and RNA Cleavage during Type III CRISPR-Cas Immunity.
Poulami Samai, Nora Pyenson, Wenyan Jiang, Gregory W Goldberg, Asma Hatoum-Aslan, Luciano A Marraffini. Cell 2015
218
60

Bipartite recognition of target RNAs activates DNA cleavage by the Type III-B CRISPR-Cas system.
Joshua R Elmore, Nolan F Sheppard, Nancy Ramia, Trace Deighan, Hong Li, Rebecca M Terns, Michael P Terns. Genes Dev 2016
122
60

The dynamic interplay of host and viral enzymes in type III CRISPR-mediated cyclic nucleotide signalling.
Januka S Athukoralage, Shirley Graham, Christophe Rouillon, Sabine Grüschow, Clarissa M Czekster, Malcolm F White. Elife 2020
19
60

RNA-activated DNA cleavage by the Type III-B CRISPR-Cas effector complex.
Michael A Estrella, Fang-Ting Kuo, Scott Bailey. Genes Dev 2016
99
50

Cyclic GMP-AMP signalling protects bacteria against viral infection.
Daniel Cohen, Sarah Melamed, Adi Millman, Gabriela Shulman, Yaara Oppenheimer-Shaanan, Assaf Kacen, Shany Doron, Gil Amitai, Rotem Sorek. Nature 2019
118
50

Programmable RNA shredding by the type III-A CRISPR-Cas system of Streptococcus thermophilus.
Gintautas Tamulaitis, Migle Kazlauskiene, Elena Manakova, Česlovas Venclovas, Alison O Nwokeoji, Mark J Dickman, Philippe Horvath, Virginijus Siksnys. Mol Cell 2014
162
50



CARF and WYL domains: ligand-binding regulators of prokaryotic defense systems.
Kira S Makarova, Vivek Anantharaman, Nick V Grishin, Eugene V Koonin, L Aravind. Front Genet 2014
99
40

An anti-CRISPR viral ring nuclease subverts type III CRISPR immunity.
Januka S Athukoralage, Stephen A McMahon, Changyi Zhang, Sabine Grüschow, Shirley Graham, Mart Krupovic, Rachel J Whitaker, Tracey M Gloster, Malcolm F White. Nature 2020
51
40

Cyclic oligoadenylate signalling mediates Mycobacterium tuberculosis CRISPR defence.
Sabine Grüschow, Januka S Athukoralage, Shirley Graham, Tess Hoogeboom, Malcolm F White. Nucleic Acids Res 2019
18
40

RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex.
Caryn R Hale, Peng Zhao, Sara Olson, Michael O Duff, Brenton R Graveley, Lance Wells, Rebecca M Terns, Michael P Terns. Cell 2009
644
40

Evolutionary and functional classification of the CARF domain superfamily, key sensors in prokaryotic antivirus defense.
Kira S Makarova, Albertas Timinskas, Yuri I Wolf, Ayal B Gussow, Virginijus Siksnys, Česlovas Venclovas, Eugene V Koonin. Nucleic Acids Res 2020
12
40

An updated evolutionary classification of CRISPR-Cas systems.
Kira S Makarova, Yuri I Wolf, Omer S Alkhnbashi, Fabrizio Costa, Shiraz A Shah, Sita J Saunders, Rodolphe Barrangou, Stan J J Brouns, Emmanuelle Charpentier, Daniel H Haft,[...]. Nat Rev Microbiol 2015
40

Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6.
Jonathan S Gootenberg, Omar O Abudayyeh, Max J Kellner, Julia Joung, James J Collins, Feng Zhang. Science 2018
618
40

Target preference of Type III-A CRISPR-Cas complexes at the transcription bubble.
Tina Y Liu, Jun-Jie Liu, Abhishek J Aditham, Eva Nogales, Jennifer A Doudna. Nat Commun 2019
15
40

Intrinsic signal amplification by type III CRISPR-Cas systems provides a sequence-specific SARS-CoV-2 diagnostic.
Andrew Santiago-Frangos, Laina N Hall, Anna Nemudraia, Artem Nemudryi, Pushya Krishna, Tanner Wiegand, Royce A Wilkinson, Deann T Snyder, Jodi F Hedges, Calvin Cicha,[...]. Cell Rep Med 2021
6
66

Nucleic acid detection with CRISPR-Cas13a/C2c2.
Jonathan S Gootenberg, Omar O Abudayyeh, Jeong Wook Lee, Patrick Essletzbichler, Aaron J Dy, Julia Joung, Vanessa Verdine, Nina Donghia, Nichole M Daringer, Catherine A Freije,[...]. Science 2017
840
40

A novel interference mechanism by a type IIIB CRISPR-Cmr module in Sulfolobus.
Ling Deng, Roger A Garrett, Shiraz A Shah, Xu Peng, Qunxin She. Mol Microbiol 2013
160
40

The CRISPR-associated Csx1 protein of Pyrococcus furiosus is an adenosine-specific endoribonuclease.
Nolan F Sheppard, Claiborne V C Glover, Rebecca M Terns, Michael P Terns. RNA 2016
47
40

Structure and activity of the RNA-targeting Type III-B CRISPR-Cas complex of Thermus thermophilus.
Raymond H J Staals, Yoshihiro Agari, Saori Maki-Yonekura, Yifan Zhu, David W Taylor, Esther van Duijn, Arjan Barendregt, Marnix Vlot, Jasper J Koehorst, Keiko Sakamoto,[...]. Mol Cell 2013
149
40

The CRISPR ancillary effector Can2 is a dual-specificity nuclease potentiating type III CRISPR defence.
Wenlong Zhu, Stuart McQuarrie, Sabine Grüschow, Stephen A McMahon, Shirley Graham, Tracey M Gloster, Malcolm F White. Nucleic Acids Res 2021
5
80

CBASS Immunity Uses CARF-Related Effectors to Sense 3'-5'- and 2'-5'-Linked Cyclic Oligonucleotide Signals and Protect Bacteria from Phage Infection.
Brianna Lowey, Aaron T Whiteley, Alexander F A Keszei, Benjamin R Morehouse, Ian T Mathews, Sadie P Antine, Victor J Cabrera, Dmitry Kashin, Percy Niemann, Mohit Jain,[...]. Cell 2020
30
40

Structure Studies of the CRISPR-Csm Complex Reveal Mechanism of Co-transcriptional Interference.
Lilan You, Jun Ma, Jiuyu Wang, Daria Artamonova, Min Wang, Liang Liu, Hua Xiang, Konstantin Severinov, Xinzheng Zhang, Yanli Wang. Cell 2019
42
40

Diversity and classification of cyclic-oligonucleotide-based anti-phage signalling systems.
Adi Millman, Sarah Melamed, Gil Amitai, Rotem Sorek. Nat Microbiol 2020
22
40

Tetramerisation of the CRISPR ring nuclease Crn3/Csx3 facilitates cyclic oligoadenylate cleavage.
Januka S Athukoralage, Stuart McQuarrie, Sabine Grüschow, Shirley Graham, Tracey M Gloster, Malcolm F White. Elife 2020
10
30

Investigation of the cyclic oligoadenylate signaling pathway of type III CRISPR systems.
Christophe Rouillon, Januka S Athukoralage, Shirley Graham, Sabine Grüschow, Malcolm F White. Methods Enzymol 2019
14
30

Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection.
Alexandra East-Seletsky, Mitchell R O'Connell, Spencer C Knight, David Burstein, Jamie H D Cate, Robert Tjian, Jennifer A Doudna. Nature 2016
382
30

Type III-A CRISPR-associated protein Csm6 degrades cyclic hexa-adenylate activator using both CARF and HEPN domains.
Dalia Smalakyte, Migle Kazlauskiene, Jesper F Havelund, Audronė Rukšėnaitė, Auguste Rimaite, Giedre Tamulaitiene, Nils J Færgeman, Gintautas Tamulaitis, Virginijus Siksnys. Nucleic Acids Res 2020
6
50

RNA Targeting by Functionally Orthogonal Type VI-A CRISPR-Cas Enzymes.
Alexandra East-Seletsky, Mitchell R O'Connell, David Burstein, Gavin J Knott, Jennifer A Doudna. Mol Cell 2017
106
30

CRISPR-Cas12-based detection of SARS-CoV-2.
James P Broughton, Xianding Deng, Guixia Yu, Clare L Fasching, Venice Servellita, Jasmeet Singh, Xin Miao, Jessica A Streithorst, Andrea Granados, Alicia Sotomayor-Gonzalez,[...]. Nat Biotechnol 2020
688
30

SCOPE enables type III CRISPR-Cas diagnostics using flexible targeting and stringent CARF ribonuclease activation.
Jurre A Steens, Yifan Zhu, David W Taylor, Jack P K Bravo, Stijn H P Prinsen, Cor D Schoen, Bart J F Keijser, Michel Ossendrijver, L Marije Hofstra, Stan J J Brouns,[...]. Nat Commun 2021
3
100

Detection of SARS-CoV-2 with SHERLOCK One-Pot Testing.
Julia Joung, Alim Ladha, Makoto Saito, Nam-Gyun Kim, Ann E Woolley, Michael Segel, Robert P J Barretto, Amardeep Ranu, Rhiannon K Macrae, Guilhem Faure,[...]. N Engl J Med 2020
154
30

CRISPR-Cas guides the future of genetic engineering.
Gavin J Knott, Jennifer A Doudna. Science 2018
432
30

Amplification-free detection of SARS-CoV-2 with CRISPR-Cas13a and mobile phone microscopy.
Parinaz Fozouni, Sungmin Son, María Díaz de León Derby, Gavin J Knott, Carley N Gray, Michael V D'Ambrosio, Chunyu Zhao, Neil A Switz, G Renuka Kumar, Stephanie I Stephens,[...]. Cell 2021
108
30

Bacterial cGAS-like enzymes synthesize diverse nucleotide signals.
Aaron T Whiteley, James B Eaglesham, Carina C de Oliveira Mann, Benjamin R Morehouse, Brianna Lowey, Eric A Nieminen, Olga Danilchanka, David S King, Amy S Y Lee, John J Mekalanos,[...]. Nature 2019
93
30

Regulation of cyclic oligoadenylate synthesis by the Staphylococcus epidermidis Cas10-Csm complex.
Mohamed Nasef, Mary C Muffly, Andrew B Beckman, Sebastian J Rowe, Forrest C Walker, Asma Hatoum-Aslan, Jack A Dunkle. RNA 2019
14
30

RNA and DNA Targeting by a Reconstituted Thermus thermophilus Type III-A CRISPR-Cas System.
Tina Y Liu, Anthony T Iavarone, Jennifer A Doudna. PLoS One 2017
43
30


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.