A citation-based method for searching scientific literature

Fabio Iannelli, Alessandro Galbiati, Ilaria Capozzo, Quan Nguyen, Brian Magnuson, Flavia Michelini, Giuseppina D'Alessandro, Matteo Cabrini, Marco Roncador, Sofia Francia, Nicola Crosetto, Mats Ljungman, Piero Carninci, Fabrizio d'Adda di Fagagna. Nat Commun 2017
Times Cited: 52







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



Times Cited
  Times     Co-cited
Similarity


ATM-dependent chromatin changes silence transcription in cis to DNA double-strand breaks.
Niraj M Shanbhag, Ilona U Rafalska-Metcalf, Carlo Balane-Bolivar, Susan M Janicki, Roger A Greenberg. Cell 2010
471
63

DNAPKcs-dependent arrest of RNA polymerase II transcription in the presence of DNA breaks.
Tibor Pankotai, Céline Bonhomme, David Chen, Evi Soutoglou. Nat Struct Mol Biol 2012
150
51

Transcriptionally active chromatin recruits homologous recombination at DNA double-strand breaks.
François Aymard, Beatrix Bugler, Christine K Schmidt, Emmanuelle Guillou, Pierre Caron, Sébastien Briois, Jason S Iacovoni, Virginie Daburon, Kyle M Miller, Stephen P Jackson,[...]. Nat Struct Mol Biol 2014
347
48


High-resolution profiling of gammaH2AX around DNA double strand breaks in the mammalian genome.
Jason S Iacovoni, Pierre Caron, Imen Lassadi, Estelle Nicolas, Laurent Massip, Didier Trouche, Gaëlle Legube. EMBO J 2010
309
40

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
196
40

Requirement for PBAF in transcriptional repression and repair at DNA breaks in actively transcribed regions of chromatin.
Andreas Kakarougkas, Amani Ismail, Anna L Chambers, Enriqueta Riballo, Alex D Herbert, Julia Künzel, Markus Löbrich, Penny A Jeggo, Jessica A Downs. Mol Cell 2014
167
40

Site-specific DICER and DROSHA RNA products control the DNA-damage response.
Sofia Francia, Flavia Michelini, Alka Saxena, Dave Tang, Michiel de Hoon, Viviana Anelli, Marina Mione, Piero Carninci, Fabrizio d'Adda di Fagagna. Nature 2012
332
38

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
96
38

Damage-induced lncRNAs control the DNA damage response through interaction with DDRNAs at individual double-strand breaks.
Flavia Michelini, Sethuramasundaram Pitchiaya, Valerio Vitelli, Sheetal Sharma, Ubaldo Gioia, Fabio Pessina, Matteo Cabrini, Yejun Wang, Ilaria Capozzo, Fabio Iannelli,[...]. Nat Cell Biol 2017
145
36

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
36

A role for small RNAs in DNA double-strand break repair.
Wei Wei, Zhaoqing Ba, Min Gao, Yang Wu, Yanting Ma, Simon Amiard, Charles I White, Jannie Michaela Rendtlew Danielsen, Yun-Gui Yang, Yijun Qi. Cell 2012
377
32

Genome-wide mapping of long-range contacts unveils clustering of DNA double-strand breaks at damaged active genes.
François Aymard, Marion Aguirrebengoa, Emmanuelle Guillou, Biola M Javierre, Beatrix Bugler, Coline Arnould, Vincent Rocher, Jason S Iacovoni, Anna Biernacka, Magdalena Skrzypczak,[...]. Nat Struct Mol Biol 2017
124
28

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
28

Classical non-homologous end-joining pathway utilizes nascent RNA for error-free double-strand break repair of transcribed genes.
Anirban Chakraborty, Nisha Tapryal, Tatiana Venkova, Nobuo Horikoshi, Raj K Pandita, Altaf H Sarker, Partha S Sarkar, Tej K Pandita, Tapas K Hazra. Nat Commun 2016
95
26

The DNA damage response: making it safe to play with knives.
Alberto Ciccia, Stephen J Elledge. Mol Cell 2010
26

The ATM repair pathway inhibits RNA polymerase I transcription in response to chromosome breaks.
Michael Kruhlak, Elizabeth E Crouch, Marika Orlov, Carolina Montaño, Stanislaw A Gorski, André Nussenzweig, Tom Misteli, Robert D Phair, Rafael Casellas. Nature 2007
202
26

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
26

Tyrosine kinase c-Abl couples RNA polymerase II transcription to DNA double-strand breaks.
Kaspar Burger, Margarita Schlackow, Monika Gullerova. Nucleic Acids Res 2019
38
36

Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes.
Ram Madabhushi, Fan Gao, Andreas R Pfenning, Ling Pan, Satoko Yamakawa, Jinsoo Seo, Richard Rueda, Trongha X Phan, Hidekuni Yamakawa, Ping-Chieh Pao,[...]. Cell 2015
339
25

Transcript-RNA-templated DNA recombination and repair.
Havva Keskin, Ying Shen, Fei Huang, Mikir Patel, Taehwan Yang, Katie Ashley, Alexander V Mazin, Francesca Storici. Nature 2014
181
25

ATM, ATR, and DNA-PK: The Trinity at the Heart of the DNA Damage Response.
Andrew N Blackford, Stephen P Jackson. Mol Cell 2017
660
25

Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures.
Thomas Clouaire, Vincent Rocher, Anahita Lashgari, Coline Arnould, Marion Aguirrebengoa, Anna Biernacka, Magdalena Skrzypczak, François Aymard, Bernard Fongang, Norbert Dojer,[...]. Mol Cell 2018
94
25

NELF-E is recruited to DNA double-strand break sites to promote transcriptional repression and repair.
Samah W Awwad, Enas R Abu-Zhayia, Noga Guttmann-Raviv, Nabieh Ayoub. EMBO Rep 2017
42
30

BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks.
Winston X Yan, Reza Mirzazadeh, Silvano Garnerone, David Scott, Martin W Schneider, Tomasz Kallas, Joaquin Custodio, Erik Wernersson, Yinqing Li, Linyi Gao,[...]. Nat Commun 2017
158
23

A small RNA response at DNA ends in Drosophila.
Katharina M Michalik, Romy Böttcher, Klaus Förstemann. Nucleic Acids Res 2012
96
23

DICER, DROSHA and DNA damage response RNAs are necessary for the secondary recruitment of DNA damage response factors.
Sofia Francia, Matteo Cabrini, Valentina Matti, Amanda Oldani, Fabrizio d'Adda di Fagagna. J Cell Sci 2016
72
23

Transcription-Coupled DNA Double-Strand Break Repair: Active Genes Need Special Care.
Aline Marnef, Sarah Cohen, Gaëlle Legube. J Mol Biol 2017
73
23

Single-molecule imaging of transcription at damaged chromatin.
Alexandra C Vítor, Sreerama C Sridhara, João C Sabino, Ana I Afonso, Ana R Grosso, Robert M Martin, Sérgio F de Almeida. Sci Adv 2019
25
48

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
209
21

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
72
21

Repression of Transcription at DNA Breaks Requires Cohesin throughout Interphase and Prevents Genome Instability.
Cornelia Meisenberg, Sarah I Pinder, Suzanna R Hopkins, Sarah K Wooller, Graeme Benstead-Hume, Frances M G Pearl, Penny A Jeggo, Jessica A Downs. Mol Cell 2019
53
21

DSBCapture: in situ capture and sequencing of DNA breaks.
Stefanie V Lensing, Giovanni Marsico, Robert Hänsel-Hertsch, Enid Y Lam, David Tannahill, Shankar Balasubramanian. Nat Methods 2016
71
19

Nucleotide-resolution DNA double-strand break mapping by next-generation sequencing.
Nicola Crosetto, Abhishek Mitra, Maria Joao Silva, Magda Bienko, Norbert Dojer, Qi Wang, Elif Karaca, Roberto Chiarle, Magdalena Skrzypczak, Krzysztof Ginalski,[...]. Nat Methods 2013
268
19

Nuclear phosphorylated Dicer processes double-stranded RNA in response to DNA damage.
Kaspar Burger, Margarita Schlackow, Martin Potts, Svenja Hester, Shabaz Mohammed, Monika Gullerova. J Cell Biol 2017
41
24

DNA double-stranded breaks induce histone H2AX phosphorylation on serine 139.
E P Rogakou, D R Pilch, A H Orr, V S Ivanova, W M Bonner. J Biol Chem 1998
19

Next-generation sequencing reveals two populations of damage-induced small RNAs at endogenous DNA double-strand breaks.
Franziska Bonath, Judit Domingo-Prim, Marcel Tarbier, Marc R Friedländer, Neus Visa. Nucleic Acids Res 2018
35
28

The DNA-damage response in human biology and disease.
Stephen P Jackson, Jiri Bartek. Nature 2009
17

DNA Breaks and End Resection Measured Genome-wide by End Sequencing.
Andres Canela, Sriram Sridharan, Nicholas Sciascia, Anthony Tubbs, Paul Meltzer, Barry P Sleckman, André Nussenzweig. Mol Cell 2016
115
17

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.
Shengdar Q Tsai, Zongli Zheng, Nhu T Nguyen, Matthew Liebers, Ved V Topkar, Vishal Thapar, Nicolas Wyvekens, Cyd Khayter, A John Iafrate, Long P Le,[...]. Nat Biotechnol 2015
17

A topoisomerase IIbeta-mediated dsDNA break required for regulated transcription.
Bong-Gun Ju, Victoria V Lunyak, Valentina Perissi, Ivan Garcia-Bassets, David W Rose, Christopher K Glass, Michael G Rosenfeld. Science 2006
608
17

Ago2 facilitates Rad51 recruitment and DNA double-strand break repair by homologous recombination.
Min Gao, Wei Wei, Ming-Ming Li, Yong-Sheng Wu, Zhaoqing Ba, Kang-Xuan Jin, Miao-Miao Li, You-Qi Liao, Samir Adhikari, Zechen Chong,[...]. Cell Res 2014
119
17

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
17

Histone demethylase KDM5A regulates the ZMYND8-NuRD chromatin remodeler to promote DNA repair.
Fade Gong, Thomas Clouaire, Marion Aguirrebengoa, Gaëlle Legube, Kyle M Miller. J Cell Biol 2017
80
17

Genome Organization Drives Chromosome Fragility.
Andres Canela, Yaakov Maman, Seolkyoung Jung, Nancy Wong, Elsa Callen, Amanda Day, Kyong-Rim Kieffer-Kwon, Aleksandra Pekowska, Hongliang Zhang, Suhas S P Rao,[...]. Cell 2017
168
17

Chromatin remodeling at DNA double-strand breaks.
Brendan D Price, Alan D D'Andrea. Cell 2013
347
15

Transcription and DNA Damage: Holding Hands or Crossing Swords?
Giuseppina D'Alessandro, Fabrizio d'Adda di Fagagna. J Mol Biol 2017
41
19

Break-seq reveals hydroxyurea-induced chromosome fragility as a result of unscheduled conflict between DNA replication and transcription.
Elizabeth A Hoffman, Andrew McCulley, Brian Haarer, Remigiusz Arnak, Wenyi Feng. Genome Res 2015
53
15


Roles of ATM and NBS1 in chromatin structure modulation and DNA double-strand break repair.
Elijahu Berkovich, Raymond J Monnat, Michael B Kastan. Nat Cell Biol 2007
348
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.