A citation-based method for searching scientific literature

Aparna Gorthi, July Carolina Romero, Eva Loranc, Lin Cao, Liesl A Lawrence, Elicia Goodale, Amanda Balboni Iniguez, Xavier Bernard, V Pragathi Masamsetti, Sydney Roston, Elizabeth R Lawlor, Jeffrey A Toretsky, Kimberly Stegmaier, Stephen L Lessnick, Yidong Chen, Alexander J R Bishop. Nature 2018
Times Cited: 107







List of co-cited articles
1227 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


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
243
23

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
239
22

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
256
21

R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
244
21

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
303
20

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
304
20

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
456
19

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
216
19


Targeting the DNA repair pathway in Ewing sarcoma.
Elizabeth Stewart, Ross Goshorn, Cori Bradley, Lyra M Griffiths, Claudia Benavente, Nathaniel R Twarog, Gregory M Miller, William Caufield, Burgess B Freeman, Armita Bahrami,[...]. Cell Rep 2014
106
18

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
461
18

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
173
18

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
145
18

Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis.
Xiaowen Zhang, Huai-Chin Chiang, Yao Wang, Chi Zhang, Sabrina Smith, Xiayan Zhao, Sreejith J Nair, Joel Michalek, Ismail Jatoi, Meeghan Lautner,[...]. Nat Commun 2017
76
22

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
207
17

Systematic identification of genomic markers of drug sensitivity in cancer cells.
Mathew J Garnett, Elena J Edelman, Sonja J Heidorn, Chris D Greenman, Anahita Dastur, King Wai Lau, Patricia Greninger, I Richard Thompson, Xi Luo, Jorge Soares,[...]. Nature 2012
16

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
260
15

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
15

Ewing sarcoma.
Thomas G P Grünewald, Florencia Cidre-Aranaz, Didier Surdez, Eleni M Tomazou, Enrique de Álava, Heinrich Kovar, Poul H Sorensen, Olivier Delattre, Uta Dirksen. Nat Rev Dis Primers 2018
243
15

Genomic landscape of Ewing sarcoma defines an aggressive subtype with co-association of STAG2 and TP53 mutations.
Franck Tirode, Didier Surdez, Xiaotu Ma, Matthew Parker, Marie Cécile Le Deley, Armita Bahrami, Zhaojie Zhang, Eve Lapouble, Sandrine Grossetête-Lalami, Michael Rusch,[...]. Cancer Discov 2014
288
14

The genomic landscape of the Ewing Sarcoma family of tumors reveals recurrent STAG2 mutation.
Andrew S Brohl, David A Solomon, Wendy Chang, Jianjun Wang, Young Song, Sivasish Sindiri, Rajesh Patidar, Laura Hurd, Li Chen, Jack F Shern,[...]. PLoS Genet 2014
250
14

Gene fusion with an ETS DNA-binding domain caused by chromosome translocation in human tumours.
O Delattre, J Zucman, B Plougastel, C Desmaze, T Melot, M Peter, H Kovar, I Joubert, P de Jong, G Rouleau. Nature 1992
14

Phase II study of olaparib in patients with refractory Ewing sarcoma following failure of standard chemotherapy.
Edwin Choy, James E Butrynski, David C Harmon, Jeffrey A Morgan, Suzanne George, Andrew J Wagner, David D'Adamo, Gregory M Cote, Yael Flamand, Cyril H Benes,[...]. BMC Cancer 2014
86
16

The Augmented R-Loop Is a Unifying Mechanism for Myelodysplastic Syndromes Induced by High-Risk Splicing Factor Mutations.
Liang Chen, Jia-Yu Chen, Yi-Jou Huang, Ying Gu, Jinsong Qiu, Hao Qian, Changwei Shao, Xuan Zhang, Jing Hu, Hairi Li,[...]. Mol Cell 2018
122
14

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
150
14

Efficacy of ATR inhibitors as single agents in Ewing sarcoma.
Maria Nieto-Soler, Isabel Morgado-Palacin, Vanesa Lafarga, Emilio Lecona, Matilde Murga, Elsa Callen, Daniel Azorin, Javier Alonso, Andres J Lopez-Contreras, Andre Nussenzweig,[...]. Oncotarget 2016
39
35


Cancer-Specific Retargeting of BAF Complexes by a Prion-like Domain.
Gaylor Boulay, Gabriel J Sandoval, Nicolo Riggi, Sowmya Iyer, Rémi Buisson, Beverly Naigles, Mary E Awad, Shruthi Rengarajan, Angela Volorio, Matthew J McBride,[...]. Cell 2017
184
13

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
142
13

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
69
18

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
144
13

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
255
13

The genomic landscape of pediatric Ewing sarcoma.
Brian D Crompton, Chip Stewart, Amaro Taylor-Weiner, Gabriela Alexe, Kyle C Kurek, Monica L Calicchio, Adam Kiezun, Scott L Carter, Sachet A Shukla, Swapnil S Mehta,[...]. Cancer Discov 2014
279
12

PARP-1 inhibition as a targeted strategy to treat Ewing's sarcoma.
J Chad Brenner, Felix Y Feng, Sumin Han, Sonam Patel, Siddharth V Goyal, Laura M Bou-Maroun, Meilan Liu, Robert Lonigro, John R Prensner, Scott A Tomlins,[...]. Cancer Res 2012
164
12

R loops: from transcription byproducts to threats to genome stability.
Andrés Aguilera, Tatiana García-Muse. Mol Cell 2012
593
12

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
109
12


EWS-FLI1 utilizes divergent chromatin remodeling mechanisms to directly activate or repress enhancer elements in Ewing sarcoma.
Nicolò Riggi, Birgit Knoechel, Shawn M Gillespie, Esther Rheinbay, Gaylor Boulay, Mario L Suvà, Nikki E Rossetti, Wannaporn E Boonseng, Ozgur Oksuz, Edward B Cook,[...]. Cancer Cell 2014
207
11

A small molecule blocking oncogenic protein EWS-FLI1 interaction with RNA helicase A inhibits growth of Ewing's sarcoma.
Hayriye V Erkizan, Yali Kong, Melinda Merchant, Silke Schlottmann, Julie S Barber-Rotenberg, Linshan Yuan, Ogan D Abaan, Tsu-Hang Chou, Sivanesan Dakshanamurthy, Milton L Brown,[...]. Nat Med 2009
278
11

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
288
11

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
126
11

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
70
15

EWS/FLI Confers Tumor Cell Synthetic Lethality to CDK12 Inhibition in Ewing Sarcoma.
Amanda Balboni Iniguez, Björn Stolte, Emily Jue Wang, Amy Saur Conway, Gabriela Alexe, Neekesh V Dharia, Nicholas Kwiatkowski, Tinghu Zhang, Brian J Abraham, Jaume Mora,[...]. Cancer Cell 2018
67
16

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

Spliceosome Mutations Induce R Loop-Associated Sensitivity to ATR Inhibition in Myelodysplastic Syndromes.
Hai Dang Nguyen, Wan Yee Leong, Weiling Li, Pavankumar N G Reddy, Jack D Sullivan, Matthew J Walter, Lee Zou, Timothy A Graubert. Cancer Res 2018
72
15


Epigenome mapping reveals distinct modes of gene regulation and widespread enhancer reprogramming by the oncogenic fusion protein EWS-FLI1.
Eleni M Tomazou, Nathan C Sheffield, Christian Schmidl, Michael Schuster, Andreas Schönegger, Paul Datlinger, Stefan Kubicek, Christoph Bock, Heinrich Kovar. Cell Rep 2015
122
10

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
406
10

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
110
10

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
211
10


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.