A citation-based method for searching scientific literature

Xiaowen Zhang, Huai-Chin Chiang, Yao Wang, Chi Zhang, Sabrina Smith, Xiayan Zhao, Sreejith J Nair, Joel Michalek, Ismail Jatoi, Meeghan Lautner, Boyce Oliver, Howard Wang, Anna Petit, Teresa Soler, Joan Brunet, Francesca Mateo, Miguel Angel Pujana, Elizabeth Poggi, Krysta Chaldekas, Claudine Isaacs, Beth N Peshkin, Oscar Ochoa, Frederic Chedin, Constantine Theoharis, Lu-Zhe Sun, Tyler J Curiel, Richard Elledge, Victor X Jin, Yanfen Hu, Rong Li. Nat Commun 2017
Times Cited: 76







List of co-cited articles
1139 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity



Breaking bad: R-loops and genome integrity.
Julie Sollier, Karlene A Cimprich. Trends Cell Biol 2015
199
15

A Class of Environmental and Endogenous Toxins Induces BRCA2 Haploinsufficiency and Genome Instability.
Shawn Lu Wen Tan, Saakshi Chadha, Yansheng Liu, Evelina Gabasova, David Perera, Karim Ahmed, Stephanie Constantinou, Xavier Renaudin, MiYoung Lee, Ruedi Aebersold,[...]. Cell 2017
89
15

Nascent Connections: R-Loops and Chromatin Patterning.
Frédéric Chédin. Trends Genet 2016
110
15

SIRT7 and the DEAD-box helicase DDX21 cooperate to resolve genomic R loops and safeguard genome stability.
Chenlin Song, Agnes Hotz-Wagenblatt, Renate Voit, Ingrid Grummt. Genes Dev 2017
93
15

Double-strand break repair-independent role for BRCA2 in blocking stalled replication fork degradation by MRE11.
Katharina Schlacher, Nicole Christ, Nicolas Siaud, Akinori Egashira, Hong Wu, Maria Jasin. Cell 2011
754
15

R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells.
Kefei Yu, Frederic Chedin, Chih-Lin Hsieh, Thomas E Wilson, Michael R Lieber. Nat Immunol 2003
519
15


Human THO-Sin3A interaction reveals new mechanisms to prevent R-loops that cause genome instability.
Irene Salas-Armenteros, Carmen Pérez-Calero, Aleix Bayona-Feliu, Emanuela Tumini, Rosa Luna, Andrés Aguilera. EMBO J 2017
61
19

BRCA1-associated R-loop affects transcription and differentiation in breast luminal epithelial cells.
Huai-Chin Chiang, Xiaowen Zhang, Jingwei Li, Xiayan Zhao, Jerry Chen, Howard T-H Wang, Ismail Jatoi, Andrew Brenner, Yanfen Hu, Rong Li. Nucleic Acids Res 2019
21
57

Senataxin associates with replication forks to protect fork integrity across RNA-polymerase-II-transcribed genes.
Amaya Alzu, Rodrigo Bermejo, Martina Begnis, Chiara Lucca, Daniele Piccini, Walter Carotenuto, Marco Saponaro, Alessandra Brambati, Andrea Cocito, Marco Foiani,[...]. Cell 2012
155
14

RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships.
Julie Nadel, Rodoniki Athanasiadou, Christophe Lemetre, N Ari Wijetunga, Pilib Ó Broin, Hanae Sato, Zhengdong Zhang, Jeffrey Jeddeloh, Cristina Montagna, Aaron Golden,[...]. Epigenetics Chromatin 2015
84
14


Damage-induced lncRNAs control the DNA damage response through interaction with DDRNAs at individual double-strand breaks.
Flavia Michelini, Sethuramasundaram Pitchiaya, Valerio Vitelli, Sheetal Sharma, Ubaldo Gioia, Fabio Pessina, Matteo Cabrini, Yejun Wang, Ilaria Capozzo, Fabio Iannelli,[...]. Nat Cell Biol 2017
174
14

Transcription Dynamics Prevent RNA-Mediated Genomic Instability through SRPK2-Dependent DDX23 Phosphorylation.
Sreerama Chaitanya Sridhara, Sílvia Carvalho, Ana Rita Grosso, Lina Marcela Gallego-Paez, Maria Carmo-Fonseca, Sérgio Fernandes de Almeida. Cell Rep 2017
59
18

A mitosis-specific and R loop-driven ATR pathway promotes faithful chromosome segregation.
Lilian Kabeche, Hai Dang Nguyen, Rémi Buisson, Lee Zou. Science 2018
132
14

Risks of Breast, Ovarian, and Contralateral Breast Cancer for BRCA1 and BRCA2 Mutation Carriers.
Karoline B Kuchenbaecker, John L Hopper, Daniel R Barnes, Kelly-Anne Phillips, Thea M Mooij, Marie-José Roos-Blom, Sarah Jervis, Flora E van Leeuwen, Roger L Milne, Nadine Andrieu,[...]. JAMA 2017
14

Transcript-RNA-templated DNA recombination and repair.
Havva Keskin, Ying Shen, Fei Huang, Mikir Patel, Taehwan Yang, Katie Ashley, Alexander V Mazin, Francesca Storici. Nature 2014
200
14

Increased global transcription activity as a mechanism of replication stress in cancer.
Panagiotis Kotsantis, Lara Marques Silva, Sarah Irmscher, Rebecca M Jones, Lisa Folkes, Natalia Gromak, Eva Petermann. Nat Commun 2016
145
14

DNA Topoisomerase I differentially modulates R-loops across the human genome.
Stefano G Manzo, Stella R Hartono, Lionel A Sanz, Jessica Marinello, Sara De Biasi, Andrea Cossarizza, Giovanni Capranico, Frederic Chedin. Genome Biol 2018
66
16

Sae2/CtIP prevents R-loop accumulation in eukaryotic cells.
Nodar Makharashvili, Sucheta Arora, Yizhi Yin, Qiong Fu, Xuemei Wen, Ji-Hoon Lee, Chung-Hsuan Kao, Justin Wc Leung, Kyle M Miller, Tanya T Paull. Elife 2018
37
29


Recruitment of BRCA1 limits MYCN-driven accumulation of stalled RNA polymerase.
Steffi Herold, Jacqueline Kalb, Gabriele Büchel, Carsten P Ade, Apoorva Baluapuri, Jiajia Xu, Jan Koster, Daniel Solvie, Anne Carstensen, Christina Klotz,[...]. Nature 2019
40
27

DNA damage and genome instability by G-quadruplex ligands are mediated by R loops in human cancer cells.
Alessio De Magis, Stefano G Manzo, Marco Russo, Jessica Marinello, Rita Morigi, Olivier Sordet, Giovanni Capranico. Proc Natl Acad Sci U S A 2019
116
14

Regulatory R-loops as facilitators of gene expression and genome stability.
Christof Niehrs, Brian Luke. Nat Rev Mol Cell Biol 2020
102
14

The yeast and human FACT chromatin-reorganizing complexes solve R-loop-mediated transcription-replication conflicts.
Emilia Herrera-Moyano, Xénia Mergui, María L García-Rubio, Sonia Barroso, Andrés Aguilera. Genes Dev 2014
110
13


BRCA1 is a component of the RNA polymerase II holoenzyme.
R Scully, S F Anderson, D M Chao, W Wei, L Ye, R A Young, D M Livingston, J D Parvin. Proc Natl Acad Sci U S A 1997
395
13

Site-specific DICER and DROSHA RNA products control the DNA-damage response.
Sofia Francia, Flavia Michelini, Alka Saxena, Dave Tang, Michiel de Hoon, Viviana Anelli, Marina Mione, Piero Carninci, Fabrizio d'Adda di Fagagna. Nature 2012
351
13

R loops regulate promoter-proximal chromatin architecture and cellular differentiation.
Poshen B Chen, Hsiuyi V Chen, Diwash Acharya, Oliver J Rando, Thomas G Fazzio. Nat Struct Mol Biol 2015
88
13

R Loops and Links to Human Disease.
Patricia Richard, James L Manley. J Mol Biol 2017
82
13

RNA-DNA hybrid (R-loop) immunoprecipitation mapping: an analytical workflow to evaluate inherent biases.
László Halász, Zsolt Karányi, Beáta Boros-Oláh, Tímea Kuik-Rózsa, Éva Sipos, Éva Nagy, Ágnes Mosolygó-L, Anett Mázló, Éva Rajnavölgyi, Gábor Halmos,[...]. Genome Res 2017
46
21

Introns Protect Eukaryotic Genomes from Transcription-Associated Genetic Instability.
Amandine Bonnet, Ana R Grosso, Abdessamad Elkaoutari, Emeline Coleno, Adrien Presle, Sreerama C Sridhara, Guilhem Janbon, Vincent Géli, Sérgio F de Almeida, Benoit Palancade. Mol Cell 2017
64
15

The Affinity of the S9.6 Antibody for Double-Stranded RNAs Impacts the Accurate Mapping of R-Loops in Fission Yeast.
Stella R Hartono, Amélie Malapert, Pénélope Legros, Pascal Bernard, Frédéric Chédin, Vincent Vanoosthuyse. J Mol Biol 2018
65
15

Arginine methylation facilitates the recruitment of TOP3B to chromatin to prevent R loop accumulation.
Yanzhong Yang, Kevin M McBride, Sean Hensley, Yue Lu, Frederic Chedin, Mark T Bedford. Mol Cell 2014
143
13


RNase H enables efficient repair of R-loop induced DNA damage.
Jeremy D Amon, Douglas Koshland. Elife 2016
77
13

XRN2 Links Transcription Termination to DNA Damage and Replication Stress.
Julio C Morales, Patricia Richard, Praveen L Patidar, Edward A Motea, Tuyen T Dang, James L Manley, David A Boothman. PLoS Genet 2016
60
16

Human proteins that interact with RNA/DNA hybrids.
Isabel X Wang, Christopher Grunseich, Jennifer Fox, Joshua Burdick, Zhengwei Zhu, Niema Ravazian, Markus Hafner, Vivian G Cheung. Genome Res 2018
63
15

DHX9 helicase promotes R-loop formation in cells with impaired RNA splicing.
Prasun Chakraborty, Jeffrey T J Huang, Kevin Hiom. Nat Commun 2018
60
16

Arginine methylation of the DDX5 helicase RGG/RG motif by PRMT5 regulates resolution of RNA:DNA hybrids.
Sofiane Y Mersaoui, Zhenbao Yu, Yan Coulombe, Martin Karam, Franciele F Busatto, Jean-Yves Masson, Stéphane Richard. EMBO J 2019
64
15

R-Loops Promote Antisense Transcription across the Mammalian Genome.
Sue Mei Tan-Wong, Somdutta Dhir, Nick J Proudfoot. Mol Cell 2019
58
17

R-loop-mediated genome instability in mRNA cleavage and polyadenylation mutants.
Peter C Stirling, Yujia A Chan, Sean W Minaker, Maria J Aristizabal, Irene Barrett, Payal Sipahimalani, Michael S Kobor, Philip Hieter. Genes Dev 2012
156
11

RECQL5 controls transcript elongation and suppresses genome instability associated with transcription stress.
Marco Saponaro, Theodoros Kantidakis, Richard Mitter, Gavin P Kelly, Mark Heron, Hannah Williams, Johannes Söding, Aengus Stewart, Jesper Q Svejstrup. Cell 2014
116
11

SMN and symmetric arginine dimethylation of RNA polymerase II C-terminal domain control termination.
Dorothy Yanling Zhao, Gerald Gish, Ulrich Braunschweig, Yue Li, Zuyao Ni, Frank W Schmitges, Guoqing Zhong, Ke Liu, Weiguo Li, Jason Moffat,[...]. Nature 2016
118
11

ATM-dependent chromatin changes silence transcription in cis to DNA double-strand breaks.
Niraj M Shanbhag, Ilona U Rafalska-Metcalf, Carlo Balane-Bolivar, Susan M Janicki, Roger A Greenberg. Cell 2010
488
11

BRCA1 tumour suppression occurs via heterochromatin-mediated silencing.
Quan Zhu, Gerald M Pao, Alexis M Huynh, Hoonkyo Suh, Nina Tonnu, Petra M Nederlof, Fred H Gage, Inder M Verma. Nature 2011
314
11

DNA-RNA hybrids: the risks of DNA breakage during transcription.
Andrés Aguilera, Belén Gómez-González. Nat Struct Mol Biol 2017
81
11

The R-loop is a common chromatin feature of the Arabidopsis genome.
Wei Xu, Hui Xu, Kuan Li, Yingxu Fan, Yang Liu, Xuerui Yang, Qianwen Sun. Nat Plants 2017
82
11

Promoter-bound trinucleotide repeat mRNA drives epigenetic silencing in fragile X syndrome.
Dilek Colak, Nikica Zaninovic, Michael S Cohen, Zev Rosenwaks, Wang-Yong Yang, Jeannine Gerhardt, Matthew D Disney, Samie R Jaffrey. Science 2014
194
11


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.