A citation-based method for searching scientific literature

Jacqueline H Barlow, Robert B Faryabi, Elsa Callén, Nancy Wong, Amy Malhowski, Hua Tang Chen, Gustavo Gutierrez-Cruz, Hong-Wei Sun, Peter McKinnon, George Wright, Rafael Casellas, Davide F Robbiani, Louis Staudt, Oscar Fernandez-Capetillo, André Nussenzweig. Cell 2013
Times Cited: 262







List of co-cited articles
1436 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
236
27

Cell-type-specific replication initiation programs set fragility of the FRA3B fragile site.
Anne Letessier, Gaël A Millot, Stéphane Koundrioukoff, Anne-Marie Lachagès, Nicolas Vogt, R Scott Hansen, Bernard Malfoy, Olivier Brison, Michelle Debatisse. Nature 2011
294
24


Replication stress activates DNA repair synthesis in mitosis.
Sheroy Minocherhomji, Songmin Ying, Victoria A Bjerregaard, Sara Bursomanno, Aiste Aleliunaite, Wei Wu, Hocine W Mankouri, Huahao Shen, Ying Liu, Ian D Hickson. Nature 2015
301
21

Causes and consequences of replication stress.
Michelle K Zeman, Karlene A Cimprich. Nat Cell Biol 2014
20

Chromosome fragile sites.
Sandra G Durkin, Thomas W Glover. Annu Rev Genet 2007
507
20

Fragile sites in cancer: more than meets the eye.
Thomas W Glover, Thomas E Wilson, Martin F Arlt. Nat Rev Cancer 2017
120
20


Common fragile site profiling in epithelial and erythroid cells reveals that most recurrent cancer deletions lie in fragile sites hosting large genes.
Benoît Le Tallec, Gaël Armel Millot, Marion Esther Blin, Olivier Brison, Bernard Dutrillaux, Michelle Debatisse. Cell Rep 2013
126
19

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
249
19

Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse.
Anthony Tubbs, Sriram Sridharan, Niek van Wietmarschen, Yaakov Maman, Elsa Callen, Andre Stanlie, Wei Wu, Xia Wu, Amanda Day, Nancy Wong,[...]. Cell 2018
86
22

FANCD2 Facilitates Replication through Common Fragile Sites.
Advaitha Madireddy, Settapong T Kosiyatrakul, Rebecca A Boisvert, Emilia Herrera-Moyano, María L García-Rubio, Jeannine Gerhardt, Elizabeth A Vuono, Nichole Owen, Zi Yan, Susan Olson,[...]. Mol Cell 2016
104
18

Large transcription units unify copy number variants and common fragile sites arising under replication stress.
Thomas E Wilson, Martin F Arlt, So Hae Park, Sountharia Rajendran, Michelle Paulsen, Mats Ljungman, Thomas W Glover. Genome Res 2015
102
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


RAD52 Facilitates Mitotic DNA Synthesis Following Replication Stress.
Rahul Bhowmick, Sheroy Minocherhomji, Ian D Hickson. Mol Cell 2016
191
16

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
334
15

Replication stress induces sister-chromatid bridging at fragile site loci in mitosis.
Kok Lung Chan, Timea Palmai-Pallag, Songmin Ying, Ian D Hickson. Nat Cell Biol 2009
420
15

Replication landscape of the human genome.
Nataliya Petryk, Malik Kahli, Yves d'Aubenton-Carafa, Yan Jaszczyszyn, Yimin Shen, Maud Silvain, Claude Thermes, Chun-Long Chen, Olivier Hyrien. Nat Commun 2016
140
15

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
15

Transcription-dependent regulation of replication dynamics modulates genome stability.
Marion Blin, Benoît Le Tallec, Viola Nähse, Mélanie Schmidt, Caroline Brossas, Gael A Millot, Marie-Noëlle Prioleau, Michelle Debatisse. Nat Struct Mol Biol 2019
35
42

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
139
14

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
111
14

Failure of origin activation in response to fork stalling leads to chromosomal instability at fragile sites.
Efrat Ozeri-Galai, Ronald Lebofsky, Ayelet Rahat, Assaf C Bester, Aaron Bensimon, Batsheva Kerem. Mol Cell 2011
126
14


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
257
14

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
294
13

Molecular basis for expression of common and rare fragile sites.
Eitan Zlotorynski, Ayelet Rahat, Jennifer Skaug, Neta Ben-Porat, Efrat Ozeri, Ruth Hershberg, Ayala Levi, Stephen W Scherer, Hanah Margalit, Batsheva Kerem. Mol Cell Biol 2003
177
13

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
450
13

DNA replication stress as a hallmark of cancer.
Morgane Macheret, Thanos D Halazonetis. Annu Rev Pathol 2015
372
13

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
275
13

Transcription-mediated organization of the replication initiation program across large genes sets common fragile sites genome-wide.
Olivier Brison, Sami El-Hilali, Dana Azar, Stéphane Koundrioukoff, Mélanie Schmidt, Viola Nähse, Yan Jaszczyszyn, Anne-Marie Lachages, Bernard Dutrillaux, Claude Thermes,[...]. Nat Commun 2019
31
41

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
393
12

An oncogene-induced DNA damage model for cancer development.
Thanos D Halazonetis, Vassilis G Gorgoulis, Jiri Bartek. Science 2008
12

Sequencing newly replicated DNA reveals widespread plasticity in human replication timing.
R Scott Hansen, Sean Thomas, Richard Sandstrom, Theresa K Canfield, Robert E Thurman, Molly Weaver, Michael O Dorschner, Stanley M Gartler, John A Stamatoyannopoulos. Proc Natl Acad Sci U S A 2010
342
12


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
208
12


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
122
12

MUS81 promotes common fragile site expression.
Songmin Ying, Sheroy Minocherhomji, Kok Lung Chan, Timea Palmai-Pallag, Wai Kit Chu, Theresa Wass, Hocine W Mankouri, Ying Liu, Ian D Hickson. Nat Cell Biol 2013
185
12

ATR regulates fragile site stability.
Anne M Casper, Paul Nghiem, Martin F Arlt, Thomas W Glover. Cell 2002
445
12

Transcription shapes DNA replication initiation and termination in human cells.
Yu-Hung Chen, Sarah Keegan, Malik Kahli, Peter Tonzi, David Fenyö, Tony T Huang, Duncan J Smith. Nat Struct Mol Biol 2019
50
24

Long Neural Genes Harbor Recurrent DNA Break Clusters in Neural Stem/Progenitor Cells.
Pei-Chi Wei, Amelia N Chang, Jennifer Kao, Zhou Du, Robin M Meyers, Frederick W Alt, Bjoern Schwer. Cell 2016
149
11

Increased replication initiation and conflicts with transcription underlie Cyclin E-induced replication stress.
R M Jones, O Mortusewicz, I Afzal, M Lorvellec, P García, T Helleday, E Petermann. Oncogene 2013
154
11

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
182
11

Genome-wide translocation sequencing reveals mechanisms of chromosome breaks and rearrangements in B cells.
Roberto Chiarle, Yu Zhang, Richard L Frock, Susanna M Lewis, Benoit Molinie, Yu-Jui Ho, Darienne R Myers, Vivian W Choi, Mara Compagno, Daniel J Malkin,[...]. Cell 2011
312
11

R-loops induce repressive chromatin marks over mammalian gene terminators.
Konstantina Skourti-Stathaki, Kinga Kamieniarz-Gdula, Nicholas J Proudfoot. Nature 2014
221
11

Mammalian RAD52 Functions in Break-Induced Replication Repair of Collapsed DNA Replication Forks.
Sotirios K Sotiriou, Irene Kamileri, Natalia Lugli, Konstantinos Evangelou, Caterina Da-Ré, Florian Huber, Laura Padayachy, Sebastien Tardy, Noemie L Nicati, Samia Barriot,[...]. Mol Cell 2016
161
11



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.