A citation-based method for searching scientific literature

Zhuo Yang, Quancan Hou, Lingling Cheng, Wei Xu, Yantao Hong, Shuai Li, Qianwen Sun. Plant Cell 2017
Times Cited: 38







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



Times Cited
  Times     Co-cited
Similarity


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
87
50

R-loop stabilization represses antisense transcription at the Arabidopsis FLC locus.
Qianwen Sun, Tibor Csorba, Konstantina Skourti-Stathaki, Nicholas J Proudfoot, Caroline Dean. Science 2013
227
42

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
416
36

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
476
28

DNA Topoisomerase 1 Prevents R-loop Accumulation to Modulate Auxin-Regulated Root Development in Rice.
Sarfraz Shafiq, Chunli Chen, Jing Yang, Lingling Cheng, Fei Ma, Emilie Widemann, Qianwen Sun. Mol Plant 2017
27
40

ALBA protein complex reads genic R-loops to maintain genome stability in Arabidopsis.
Wei Yuan, Jincong Zhou, Jinjin Tong, Wanqing Zhuo, Lishuan Wang, Yan Li, Qianwen Sun, Weiqiang Qian. Sci Adv 2019
22
45

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
227
23

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
268
23

R loops: from transcription byproducts to threats to genome stability.
Andrés Aguilera, Tatiana García-Muse. Mol Cell 2012
605
23

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
23


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
259
18


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
216
18

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
270
18

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
252
18

Characterization of functional relationships of R-loops with gene transcription and epigenetic modifications in rice.
Yuan Fang, Lifen Chen, Kande Lin, Yilong Feng, Pengyue Zhang, Xiucai Pan, Jennifer Sanders, Yufeng Wu, Xiu-E Wang, Zhen Su,[...]. Genome Res 2019
20
35

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
525
15

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
229
15

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
117
15

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
308
15


A mitosis-specific and R loop-driven ATR pathway promotes faithful chromosome segregation.
Lilian Kabeche, Hai Dang Nguyen, Rémi Buisson, Lee Zou. Science 2018
135
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
153
15

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
265
15

Whirly proteins maintain plastid genome stability in Arabidopsis.
Alexandre Maréchal, Jean-Sébastien Parent, Félix Véronneau-Lafortune, Alexandre Joyeux, B Franz Lang, Normand Brisson. Proc Natl Acad Sci U S A 2009
135
15

Divergent roles for the two PolI-like organelle DNA polymerases of Arabidopsis.
Jean-Sébastien Parent, Etienne Lepage, Normand Brisson. Plant Physiol 2011
69
15

Breaking bad: R-loops and genome integrity.
Julie Sollier, Karlene A Cimprich. Trends Cell Biol 2015
204
15

Ribonuclease H: the enzymes in eukaryotes.
Susana M Cerritelli, Robert J Crouch. FEBS J 2009
457
15

R Loops: From Physiological to Pathological Roles.
Tatiana García-Muse, Andrés Aguilera. Cell 2019
189
15

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
78
15

R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
266
15

The R-Loop Atlas of Arabidopsis Development and Responses to Environmental Stimuli.
Wei Xu, Kuan Li, Shuai Li, Quancan Hou, Yushun Zhang, Kunpeng Liu, Qianwen Sun. Plant Cell 2020
28
21

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
253
13

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
70
13

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
470
13

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
162
13

Nascent Connections: R-Loops and Chromatin Patterning.
Frédéric Chédin. Trends Genet 2016
110
13



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
150
13

DNA-binding proteins of the Whirly family in Arabidopsis thaliana are targeted to the organelles.
Kirsten Krause, Isabell Kilbienski, Maria Mulisch, Anja Rödiger, Anke Schäfer, Karin Krupinska. FEBS Lett 2005
79
13

Organelle DNA rearrangement mapping reveals U-turn-like inversions as a major source of genomic instability in Arabidopsis and humans.
Éric Zampini, Étienne Lepage, Samuel Tremblay-Belzile, Sébastien Truche, Normand Brisson. Genome Res 2015
32
15

Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria.
Melisa K Wall, Lesley A Mitchenall, Anthony Maxwell. Proc Natl Acad Sci U S A 2004
106
13


R-loop: an emerging regulator of chromatin dynamics.
Qais Al-Hadid, Yanzhong Yang. Acta Biochim Biophys Sin (Shanghai) 2016
17
29

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
153
13


Failure to produce mitochondrial DNA results in embryonic lethality in Rnaseh1 null mice.
Susana M Cerritelli, Ella G Frolova, Chiguang Feng, Alexander Grinberg, Paul E Love, Robert J Crouch. Mol Cell 2003
233
13

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


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.