A citation-based method for searching scientific literature

Qianwen Sun, Tibor Csorba, Konstantina Skourti-Stathaki, Nicholas J Proudfoot, Caroline Dean. Science 2013
Times Cited: 201







List of co-cited articles
1232 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


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
421
33

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
69
42

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
225
26

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
369
25

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
429
24

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
503
23


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
247
21

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
280
20


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
237
19

Noncoding transcription by alternative RNA polymerases dynamically regulates an auxin-driven chromatin loop.
Federico Ariel, Teddy Jegu, David Latrasse, Natali Romero-Barrios, Aurélie Christ, Moussa Benhamed, Martin Crespi. Mol Cell 2014
178
19

Antisense COOLAIR mediates the coordinated switching of chromatin states at FLC during vernalization.
Tibor Csorba, Julia I Questa, Qianwen Sun, Caroline Dean. Proc Natl Acad Sci U S A 2014
182
19

R loops: from transcription byproducts to threats to genome stability.
Andrés Aguilera, Tatiana García-Muse. Mol Cell 2012
562
19

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
158
18

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
204
18

Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target.
Szymon Swiezewski, Fuquan Liu, Andreas Magusin, Caroline Dean. Nature 2009
486
18


Target mimicry provides a new mechanism for regulation of microRNA activity.
José Manuel Franco-Zorrilla, Adrián Valli, Marco Todesco, Isabel Mateos, María Isabel Puga, Ignacio Rubio-Somoza, Antonio Leyva, Detlef Weigel, Juan Antonio García, Javier Paz-Ares. Nat Genet 2007
17


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
195
17

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
271
16


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
212
16

Targeted 3' processing of antisense transcripts triggers Arabidopsis FLC chromatin silencing.
Fuquan Liu, Sebastian Marquardt, Clare Lister, Szymon Swiezewski, Caroline Dean. Science 2010
272
15

Functional consequences of splicing of the antisense transcript COOLAIR on FLC transcription.
Sebastian Marquardt, Oleg Raitskin, Zhe Wu, Fuquan Liu, Qianwen Sun, Caroline Dean. Mol Cell 2014
144
15

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
75
20

Head-to-head antisense transcription and R-loop formation promotes transcriptional activation.
Raquel Boque-Sastre, Marta Soler, Cristina Oliveira-Mateos, Anna Portela, Catia Moutinho, Sergi Sayols, Alberto Villanueva, Manel Esteller, Sonia Guil. Proc Natl Acad Sci U S A 2015
109
15

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
128
15

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
111
15

A circRNA from SEPALLATA3 regulates splicing of its cognate mRNA through R-loop formation.
Vanessa M Conn, Véronique Hugouvieux, Aditya Nayak, Stephanie A Conos, Giovanna Capovilla, Gökhan Cildir, Agnès Jourdain, Vinay Tergaonkar, Markus Schmid, Chloe Zubieta,[...]. Nat Plants 2017
202
15

Genome-wide profiling of yeast DNA:RNA hybrid prone sites with DRIP-chip.
Yujia A Chan, Maria J Aristizabal, Phoebe Y T Lu, Zongli Luo, Akil Hamza, Michael S Kobor, Peter C Stirling, Philip Hieter. PLoS Genet 2014
136
14


R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
181
14

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
13

A long noncoding RNA regulates photoperiod-sensitive male sterility, an essential component of hybrid rice.
Jihua Ding, Qing Lu, Yidan Ouyang, Hailiang Mao, Pingbo Zhang, Jialing Yao, Caiguo Xu, Xianghua Li, Jinghua Xiao, Qifa Zhang. Proc Natl Acad Sci U S A 2012
277
13

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
322
13


Breaking bad: R-loops and genome integrity.
Julie Sollier, Karlene A Cimprich. Trends Cell Biol 2015
187
13

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
274
13

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
188
13

RNase H1 Cooperates with DNA Gyrases to Restrict R-Loops and Maintain Genome Integrity in Arabidopsis Chloroplasts.
Zhuo Yang, Quancan Hou, Lingling Cheng, Wei Xu, Yantao Hong, Shuai Li, Qianwen Sun. Plant Cell 2017
29
44

Nascent Connections: R-Loops and Chromatin Patterning.
Frédéric Chédin. Trends Genet 2016
99
13

R Loops: From Physiological to Pathological Roles.
Tatiana García-Muse, Andrés Aguilera. Cell 2019
121
13

R-Loop Mediated trans Action of the APOLO Long Noncoding RNA.
Federico Ariel, Leandro Lucero, Aurelie Christ, Maria Florencia Mammarella, Teddy Jegu, Alaguraj Veluchamy, Kiruthiga Mariappan, David Latrasse, Thomas Blein, Chang Liu,[...]. Mol Cell 2020
46
28

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
235
12

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
215
12

Ribonuclease H: the enzymes in eukaryotes.
Susana M Cerritelli, Robert J Crouch. FEBS J 2009
415
12

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
127
12

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
77
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.