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: 73







List of co-cited articles
1090 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


BRCA2 prevents R-loop accumulation and associates with TREX-2 mRNA export factor PCID2.
Vaibhav Bhatia, Sonia I Barroso, María L García-Rubio, Emanuela Tumini, Emilia Herrera-Moyano, Andrés Aguilera. Nature 2014
295
64

BRCA1 recruitment to transcriptional pause sites is required for R-loop-driven DNA damage repair.
Elodie Hatchi, Konstantina Skourti-Stathaki, Steffen Ventz, Luca Pinello, Angela Yen, Kinga Kamieniarz-Gdula, Stoil Dimitrov, Shailja Pathania, Kristine M McKinney, Matthew L Eaton,[...]. Mol Cell 2015
237
64

Transcription-coupled nucleotide excision repair factors promote R-loop-induced genome instability.
Julie Sollier, Caroline Townsend Stork, María L García-Rubio, Renee D Paulsen, Andrés Aguilera, Karlene A Cimprich. Mol Cell 2014
294
45

Human senataxin resolves RNA/DNA hybrids formed at transcriptional pause sites to promote Xrn2-dependent termination.
Konstantina Skourti-Stathaki, Nicholas J Proudfoot, Natalia Gromak. Mol Cell 2011
449
43

BRCA2 Regulates Transcription Elongation by RNA Polymerase II to Prevent R-Loop Accumulation.
Mahmud K K Shivji, Xavier Renaudin, Çiğdem H Williams, Ashok R Venkitaraman. Cell Rep 2018
65
49

R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters.
Paul A Ginno, Paul L Lott, Holly C Christensen, Ian Korf, Frédéric Chédin. Mol Cell 2012
450
38

Prevalent, Dynamic, and Conserved R-Loop Structures Associate with Specific Epigenomic Signatures in Mammals.
Lionel A Sanz, Stella R Hartono, Yoong Wearn Lim, Sandra Steyaert, Aparna Rajpurkar, Paul A Ginno, Xiaoqin Xu, Frédéric Chédin. Mol Cell 2016
249
38

Transcription-Replication Conflict Orientation Modulates R-Loop Levels and Activates Distinct DNA Damage Responses.
Stephan Hamperl, Michael J Bocek, Joshua C Saldivar, Tomek Swigut, Karlene A Cimprich. Cell 2017
236
35

R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
226
32

The Fanconi Anemia Pathway Maintains Genome Stability by Coordinating Replication and Transcription.
Rebekka A Schwab, Jadwiga Nieminuszczy, Fenil Shah, Jamie Langton, David Lopez Martinez, Chih-Chao Liang, Martin A Cohn, Richard J Gibbons, Andrew J Deans, Wojciech Niedzwiedz. Mol Cell 2015
202
30

Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage.
Caroline Townsend Stork, Michael Bocek, Madzia P Crossley, Julie Sollier, Lionel A Sanz, Frédéric Chédin, Tomek Swigut, Karlene A Cimprich. Elife 2016
138
30

Senataxin resolves RNA:DNA hybrids forming at DNA double-strand breaks to prevent translocations.
Sarah Cohen, Nadine Puget, Yea-Lih Lin, Thomas Clouaire, Marion Aguirrebengoa, Vincent Rocher, Philippe Pasero, Yvan Canitrot, Gaëlle Legube. Nat Commun 2018
146
30

R loops: from transcription byproducts to threats to genome stability.
Andrés Aguilera, Tatiana García-Muse. Mol Cell 2012
587
28


The Fanconi Anemia Pathway Protects Genome Integrity from R-loops.
María L García-Rubio, Carmen Pérez-Calero, Sonia I Barroso, Emanuela Tumini, Emilia Herrera-Moyano, Iván V Rosado, Andrés Aguilera. PLoS Genet 2015
167
27


Transient RNA-DNA Hybrids Are Required for Efficient Double-Strand Break Repair.
Corina Ohle, Rafael Tesorero, Géza Schermann, Nikolay Dobrev, Irmgard Sinning, Tamás Fischer. Cell 2016
211
27

R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters.
Liang Chen, Jia-Yu Chen, Xuan Zhang, Ying Gu, Rui Xiao, Changwei Shao, Peng Tang, Hao Qian, Daji Luo, Hairi Li,[...]. Mol Cell 2017
130
27

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
221
26


R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
393
24

Intracellular transcription of G-rich DNAs induces formation of G-loops, novel structures containing G4 DNA.
Michelle L Duquette, Priya Handa, Jack A Vincent, Andrew F Taylor, Nancy Maizels. Genes Dev 2004
372
23

Characterization of monoclonal antibody to DNA.RNA and its application to immunodetection of hybrids.
S J Boguslawski, D E Smith, M A Michalak, K E Mickelson, C O Yehle, W L Patterson, R J Carrico. J Immunol Methods 1986
247
21

Topoisomerase I suppresses genomic instability by preventing interference between replication and transcription.
Sandie Tuduri, Laure Crabbé, Chiara Conti, Hélène Tourrière, Heidi Holtgreve-Grez, Anna Jauch, Véronique Pantesco, John De Vos, Aubin Thomas, Charles Theillet,[...]. Nat Cell Biol 2009
334
21

Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis.
Aziz El Hage, Sarah L French, Ann L Beyer, David Tollervey. Genes Dev 2010
283
21

R-loop-mediated genomic instability is caused by impairment of replication fork progression.
Wenjian Gan, Zhishuang Guan, Jie Liu, Ting Gui, Keng Shen, James L Manley, Xialu Li. Genes Dev 2011
257
21

EWS-FLI1 increases transcription to cause R-loops and block BRCA1 repair in Ewing sarcoma.
Aparna Gorthi, July Carolina Romero, Eva Loranc, Lin Cao, Liesl A Lawrence, Elicia Goodale, Amanda Balboni Iniguez, Xavier Bernard, V Pragathi Masamsetti, Sydney Roston,[...]. Nature 2018
102
21


GC skew at the 5' and 3' ends of human genes links R-loop formation to epigenetic regulation and transcription termination.
Paul A Ginno, Yoong Wearn Lim, Paul L Lott, Ian Korf, Frédéric Chédin. Genome Res 2013
208
20

An ATR-dependent function for the Ddx19 RNA helicase in nuclear R-loop metabolism.
Dana Hodroj, Bénédicte Recolin, Kamar Serhal, Susan Martinez, Nikolay Tsanov, Raghida Abou Merhi, Domenico Maiorano. EMBO J 2017
67
22

S1-DRIP-seq identifies high expression and polyA tracts as major contributors to R-loop formation.
Lamia Wahba, Lorenzo Costantino, Frederick J Tan, Anjali Zimmer, Douglas Koshland. Genes Dev 2016
136
20

Histone Mutants Separate R Loop Formation from Genome Instability Induction.
Desiré García-Pichardo, Juan C Cañas, María L García-Rubio, Belén Gómez-González, Ana G Rondón, Andrés Aguilera. Mol Cell 2017
63
22

Ribonuclease H: the enzymes in eukaryotes.
Susana M Cerritelli, Robert J Crouch. FEBS J 2009
437
19

R-loops associated with triplet repeat expansions promote gene silencing in Friedreich ataxia and fragile X syndrome.
Matthias Groh, Michele M P Lufino, Richard Wade-Martins, Natalia Gromak. PLoS Genet 2014
207
19

Replication-Transcription Conflicts Generate R-Loops that Orchestrate Bacterial Stress Survival and Pathogenesis.
Kevin S Lang, Ashley N Hall, Christopher N Merrikh, Mark Ragheb, Hannah Tabakh, Alex J Pollock, Joshua J Woodward, Julia E Dreifus, Houra Merrikh. Cell 2017
111
19

Functions of Replication Protein A as a Sensor of R Loops and a Regulator of RNaseH1.
Hai Dang Nguyen, Tribhuwan Yadav, Sumanprava Giri, Borja Saez, Timothy A Graubert, Lee Zou. Mol Cell 2017
121
19

R Loops: From Physiological to Pathological Roles.
Tatiana García-Muse, Andrés Aguilera. Cell 2019
156
19

Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstacles.
Belén Gómez-González, María García-Rubio, Rodrigo Bermejo, Hélène Gaillard, Katsuhiko Shirahige, Antonio Marín, Marco Foiani, Andrés Aguilera. EMBO J 2011
146
17

DNA damage triggers SAF-A and RNA biogenesis factors exclusion from chromatin coupled to R-loops removal.
Sébastien Britton, Emma Dernoncourt, Christine Delteil, Carine Froment, Odile Schiltz, Bernard Salles, Philippe Frit, Patrick Calsou. Nucleic Acids Res 2014
106
17

Transcription-replication conflicts: how they occur and how they are resolved.
Tatiana García-Muse, Andrés Aguilera. Nat Rev Mol Cell Biol 2016
177
17

DEAD Box 1 Facilitates Removal of RNA and Homologous Recombination at DNA Double-Strand Breaks.
Lei Li, Devon R Germain, Ho-Yin Poon, Matthew R Hildebrandt, Elizabeth A Monckton, Darin McDonald, Michael J Hendzel, Roseline Godbout. Mol Cell Biol 2016
73
17

R loops are linked to histone H3 S10 phosphorylation and chromatin condensation.
Maikel Castellano-Pozo, José M Santos-Pereira, Ana G Rondón, Sonia Barroso, Eloisa Andújar, Mónica Pérez-Alegre, Tatiana García-Muse, Andrés Aguilera. Mol Cell 2013
167
17

Senataxin Mutation Reveals How R-Loops Promote Transcription by Blocking DNA Methylation at Gene Promoters.
Christopher Grunseich, Isabel X Wang, Jason A Watts, Joshua T Burdick, Robert D Guber, Zhengwei Zhu, Alan Bruzel, Tyler Lanman, Kelian Chen, Alice B Schindler,[...]. Mol Cell 2018
79
17

RECQ-like helicases Sgs1 and BLM regulate R-loop-associated genome instability.
Emily Yun-Chia Chang, Carolina A Novoa, Maria J Aristizabal, Yan Coulombe, Romulo Segovia, Richa Chaturvedi, Yaoqing Shen, Christelle Keong, Annie S Tam, Steven J M Jones,[...]. J Cell Biol 2017
56
23

Drosha drives the formation of DNA:RNA hybrids around DNA break sites to facilitate DNA repair.
Wei-Ting Lu, Ben R Hawley, George L Skalka, Robert A Baldock, Ewan M Smith, Aldo S Bader, Michal Malewicz, Felicity Z Watts, Ania Wilczynska, Martin Bushell. Nat Commun 2018
107
17

BRCA2 controls DNA:RNA hybrid level at DSBs by mediating RNase H2 recruitment.
Giuseppina D'Alessandro, Donna Rose Whelan, Sean Michael Howard, Valerio Vitelli, Xavier Renaudin, Marek Adamowicz, Fabio Iannelli, Corey Winston Jones-Weinert, MiYoung Lee, Valentina Matti,[...]. Nat Commun 2018
105
17

Yeast Sen1 helicase protects the genome from transcription-associated instability.
Hannah E Mischo, Belén Gómez-González, Pawel Grzechnik, Ana G Rondón, Wu Wei, Lars Steinmetz, Andrés Aguilera, Nick J Proudfoot. Mol Cell 2011
242
16

Breaking bad: R-loops and genome integrity.
Julie Sollier, Karlene A Cimprich. Trends Cell Biol 2015
194
16

Nascent Connections: R-Loops and Chromatin Patterning.
Frédéric Chédin. Trends Genet 2016
108
16



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.