A citation-based method for searching scientific literature

Lisa Prendergast, Urszula L McClurg, Rossitsa Hristova, Rolando Berlinguer-Palmini, Sarah Greener, Katie Veitch, Inmaculada Hernandez, Philippe Pasero, Daniel Rico, Jonathan M G Higgins, Anastas Gospodinov, Manolis Papamichos-Chronakis. Nat Commun 2020
Times Cited: 15







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



Times Cited
  Times     Co-cited
Similarity


R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
194
53

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
225
46

R Loops: From Physiological to Pathological Roles.
Tatiana García-Muse, Andrés Aguilera. Cell 2019
130
46

The SWI/SNF chromatin remodeling complex helps resolve R-loop-mediated transcription-replication conflicts.
Aleix Bayona-Feliu, Sonia Barroso, Sergio Muñoz, Andrés Aguilera. Nat Genet 2021
14
50

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
230
33

Mec1, INO80, and the PAF1 complex cooperate to limit transcription replication conflicts through RNAPII removal during replication stress.
Jérôme Poli, Christian-Benedikt Gerhold, Alessandro Tosi, Nicole Hustedt, Andrew Seeber, Ragna Sack, Franz Herzog, Philippe Pasero, Kenji Shimada, Karl-Peter Hopfner,[...]. Genes Dev 2016
67
33

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
432
26

The DNA damage response acts as a safeguard against harmful DNA-RNA hybrids of different origins.
Sonia Barroso, Emilia Herrera-Moyano, Sergio Muñoz, María García-Rubio, Belén Gómez-González, Andrés Aguilera. EMBO Rep 2019
29
26

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
153
26


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
55
26

INO80 Chromatin Remodeler Facilitates Release of RNA Polymerase II from Chromatin for Ubiquitin-Mediated Proteasomal Degradation.
Anne Lafon, Surayya Taranum, Federico Pietrocola, Florent Dingli, Damarys Loew, Sandipan Brahma, Blaine Bartholomew, Manolis Papamichos-Chronakis. Mol Cell 2015
43
26

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
326
26

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
131
26

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
222
26

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
279
26

Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy.
Cigall Kadoch, Diana C Hargreaves, Courtney Hodges, Laura Elias, Lena Ho, Jeff Ranish, Gerald R Crabtree. Nat Genet 2013
692
26


Transcription-mediated replication hindrance: a major driver of genome instability.
Belén Gómez-González, Andrés Aguilera. Genes Dev 2019
78
26

PBRM1 Deficiency Confers Synthetic Lethality to DNA Repair Inhibitors in Cancer.
Roman M Chabanon, Daphné Morel, Thomas Eychenne, Léo Colmet-Daage, Ilirjana Bajrami, Nicolas Dorvault, Marlène Garrido, Cornelia Meisenberg, Andrew Lamb, Carine Ngo,[...]. Cancer Res 2021
13
30

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
103
26

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
107
26

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
162
26

RTEL1 suppresses G-quadruplex-associated R-loops at difficult-to-replicate loci in the human genome.
Wei Wu, Rahul Bhowmick, Ivan Vogel, Özgün Özer, Fiorella Ghisays, Roshan S Thakur, Esther Sanchez de Leon, Philipp H Richter, Liqun Ren, John H Petrini,[...]. Nat Struct Mol Biol 2020
29
20

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
504
20

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
58
20

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
199
20

m6A promotes R-loop formation to facilitate transcription termination.
Xin Yang, Qian-Lan Liu, Wei Xu, Yi-Chang Zhang, Ying Yang, Lin-Fang Ju, Jing Chen, Yu-Sheng Chen, Kuan Li, Jie Ren,[...]. Cell Res 2019
43
20

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
130
20

RNase H and multiple RNA biogenesis factors cooperate to prevent RNA:DNA hybrids from generating genome instability.
Lamia Wahba, Jeremy D Amon, Douglas Koshland, Milena Vuica-Ross. Mol Cell 2011
252
20

RNase H1 and H2 Are Differentially Regulated to Process RNA-DNA Hybrids.
Arianna Lockhart, Vanessa Borges Pires, Fabio Bento, Vanessa Kellner, Sarah Luke-Glaser, George Yakoub, Helle D Ulrich, Brian Luke. Cell Rep 2019
30
20

Topoisomerase 1 prevents replication stress at R-loop-enriched transcription termination sites.
Alexy Promonet, Ismaël Padioleau, Yaqun Liu, Lionel Sanz, Anna Biernacka, Anne-Lyne Schmitz, Magdalena Skrzypczak, Amélie Sarrazin, Clément Mettling, Maga Rowicka,[...]. Nat Commun 2020
28
20

R-loop formation during S phase is restricted by PrimPol-mediated repriming.
Saša Šviković, Alastair Crisp, Sue Mei Tan-Wong, Thomas A Guilliam, Aidan J Doherty, Nicholas J Proudfoot, Guillaume Guilbaud, Julian E Sale. EMBO J 2019
44
20

Crystal structure of the nucleosome core particle at 2.8 A resolution.
K Luger, A W Mäder, R K Richmond, D F Sargent, T J Richmond. Nature 1997
20

BRD4 prevents the accumulation of R-loops and protects against transcription-replication collision events and DNA damage.
Fred C Lam, Yi Wen Kong, Qiuying Huang, Tu-Lan Vu Han, Amanda D Maffa, Ekkehard M Kasper, Michael B Yaffe. Nat Commun 2020
19
20

Genome instability and transcription elongation impairment in human cells depleted of THO/TREX.
María S Domínguez-Sánchez, Sonia Barroso, Belén Gómez-González, Rosa Luna, Andrés Aguilera. PLoS Genet 2011
142
20

BRD4 Prevents R-Loop Formation and Transcription-Replication Conflicts by Ensuring Efficient Transcription Elongation.
Drake S Edwards, Rohin Maganti, Jarred P Tanksley, Jie Luo, James J H Park, Elena Balkanska-Sinclair, Jinjie Ling, Scott R Floyd. Cell Rep 2020
13
23

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
195
20

DNA double-strand break repair-pathway choice in somatic mammalian cells.
Ralph Scully, Arvind Panday, Rajula Elango, Nicholas A Willis. Nat Rev Mol Cell Biol 2019
303
20


Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends.
Claus M Azzalin, Patrick Reichenbach, Lela Khoriauli, Elena Giulotto, Joachim Lingner. Science 2007
829
20

The INO80 remodeller in transcription, replication and repair.
Jérôme Poli, Susan M Gasser, Manolis Papamichos-Chronakis. Philos Trans R Soc Lond B Biol Sci 2017
40
20

INO80C Remodeler Maintains Genomic Stability by Preventing Promiscuous Transcription at Replication Origins.
Salih Topal, Christopher Van, Yong Xue, Michael F Carey, Craig L Peterson. Cell Rep 2020
4
75

Human Rad52 Promotes XPG-Mediated R-loop Processing to Initiate Transcription-Associated Homologous Recombination Repair.
Takaaki Yasuhara, Reona Kato, Yoshihiko Hagiwara, Bunsyo Shiotani, Motohiro Yamauchi, Shinichiro Nakada, Atsushi Shibata, Kiyoshi Miyagawa. Cell 2018
122
20

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
209
20

ARID1A regulates R-loop associated DNA replication stress.
Shuhe Tsai, Louis-Alexandre Fournier, Emily Yun-Chia Chang, James P Wells, Sean W Minaker, Yi Dan Zhu, Alan Ying-Hsu Wang, Yemin Wang, David G Huntsman, Peter C Stirling. PLoS Genet 2021
10
30

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
92
20

R-loops as Janus-faced modulators of DNA repair.
Aline Marnef, Gaëlle Legube. Nat Cell Biol 2021
19
20

BRCA2 promotes DNA-RNA hybrid resolution by DDX5 helicase at DNA breaks to facilitate their repair‡.
Gaetana Sessa, Belén Gómez-González, Sonia Silva, Carmen Pérez-Calero, Romane Beaurepere, Sonia Barroso, Sylvain Martineau, Charlotte Martin, Åsa Ehlén, Juan S Martínez,[...]. EMBO J 2021
17
20

The dark side of RNA:DNA hybrids.
Alessandra Brambati, Luca Zardoni, Eleonora Nardini, Achille Pellicioli, Giordano Liberi. Mutat Res Rev Mutat Res 2020
13
23


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.