A citation-based method for searching scientific literature

Serena Nik-Zainal, Ludmil B Alexandrov, David C Wedge, Peter Van Loo, Christopher D Greenman, Keiran Raine, David Jones, Jonathan Hinton, John Marshall, Lucy A Stebbings, Andrew Menzies, Sancha Martin, Kenric Leung, Lina Chen, Catherine Leroy, Manasa Ramakrishna, Richard Rance, King Wai Lau, Laura J Mudie, Ignacio Varela, David J McBride, Graham R Bignell, Susanna L Cooke, Adam Shlien, John Gamble, Ian Whitmore, Mark Maddison, Patrick S Tarpey, Helen R Davies, Elli Papaemmanuil, Philip J Stephens, Stuart McLaren, Adam P Butler, Jon W Teague, Göran Jönsson, Judy E Garber, Daniel Silver, Penelope Miron, Aquila Fatima, Sandrine Boyault, Anita Langerød, Andrew Tutt, John W M Martens, Samuel A J R Aparicio, Åke Borg, Anne Vincent Salomon, Gilles Thomas, Anne-Lise Børresen-Dale, Andrea L Richardson, Michael S Neuberger, P Andrew Futreal, Peter J Campbell, Michael R Stratton. Cell 2012
Times Cited: 1036







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



Times Cited
  Times     Co-cited
Similarity


Signatures of mutational processes in human cancer.
Ludmil B Alexandrov, Serena Nik-Zainal, David C Wedge, Samuel A J R Aparicio, Sam Behjati, Andrew V Biankin, Graham R Bignell, Niccolò Bolli, Ake Borg, Anne-Lise Børresen-Dale,[...]. Nature 2013
66

The repertoire of mutational signatures in human cancer.
Ludmil B Alexandrov, Jaegil Kim, Nicholas J Haradhvala, Mi Ni Huang, Alvin Wei Tian Ng, Yang Wu, Arnoud Boot, Kyle R Covington, Dmitry A Gordenin, Erik N Bergstrom,[...]. Nature 2020
362
28

Landscape of somatic mutations in 560 breast cancer whole-genome sequences.
Serena Nik-Zainal, Helen Davies, Johan Staaf, Manasa Ramakrishna, Dominik Glodzik, Xueqing Zou, Inigo Martincorena, Ludmil B Alexandrov, Sancha Martin, David C Wedge,[...]. Nature 2016
908
27

Deciphering signatures of mutational processes operative in human cancer.
Ludmil B Alexandrov, Serena Nik-Zainal, David C Wedge, Peter J Campbell, Michael R Stratton. Cell Rep 2013
563
25


An APOBEC cytidine deaminase mutagenesis pattern is widespread in human cancers.
Steven A Roberts, Michael S Lawrence, Leszek J Klimczak, Sara A Grimm, David Fargo, Petar Stojanov, Adam Kiezun, Gregory V Kryukov, Scott L Carter, Gordon Saksena,[...]. Nat Genet 2013
624
16

HRDetect is a predictor of BRCA1 and BRCA2 deficiency based on mutational signatures.
Helen Davies, Dominik Glodzik, Sandro Morganella, Lucy R Yates, Johan Staaf, Xueqing Zou, Manasa Ramakrishna, Sancha Martin, Sandrine Boyault, Anieta M Sieuwerts,[...]. Nat Med 2017
285
15

Mechanisms underlying mutational signatures in human cancers.
Thomas Helleday, Saeed Eshtad, Serena Nik-Zainal. Nat Rev Genet 2014
414
14

An APOBEC3A hypermutation signature is distinguishable from the signature of background mutagenesis by APOBEC3B in human cancers.
Kin Chan, Steven A Roberts, Leszek J Klimczak, Joan F Sterling, Natalie Saini, Ewa P Malc, Jaegil Kim, David J Kwiatkowski, David C Fargo, Piotr A Mieczkowski,[...]. Nat Genet 2015
187
14

Clustered mutations in yeast and in human cancers can arise from damaged long single-strand DNA regions.
Steven A Roberts, Joan Sterling, Cole Thompson, Shawn Harris, Deepak Mav, Ruchir Shah, Leszek J Klimczak, Gregory V Kryukov, Ewa Malc, Piotr A Mieczkowski,[...]. Mol Cell 2012
259
14

The topography of mutational processes in breast cancer genomes.
Sandro Morganella, Ludmil B Alexandrov, Dominik Glodzik, Xueqing Zou, Helen Davies, Johan Staaf, Anieta M Sieuwerts, Arie B Brinkman, Sancha Martin, Manasa Ramakrishna,[...]. Nat Commun 2016
132
13

Chromothripsis and Kataegis Induced by Telomere Crisis.
John Maciejowski, Yilong Li, Nazario Bosco, Peter J Campbell, Titia de Lange. Cell 2015
295
12

A Compendium of Mutational Signatures of Environmental Agents.
Jill E Kucab, Xueqing Zou, Sandro Morganella, Madeleine Joel, A Scott Nanda, Eszter Nagy, Celine Gomez, Andrea Degasperi, Rebecca Harris, Stephen P Jackson,[...]. Cell 2019
130
12

Massive genomic rearrangement acquired in a single catastrophic event during cancer development.
Philip J Stephens, Chris D Greenman, Beiyuan Fu, Fengtang Yang, Graham R Bignell, Laura J Mudie, Erin D Pleasance, King Wai Lau, David Beare, Lucy A Stebbings,[...]. Cell 2011
12

COSMIC: the Catalogue Of Somatic Mutations In Cancer.
John G Tate, Sally Bamford, Harry C Jubb, Zbyslaw Sondka, David M Beare, Nidhi Bindal, Harry Boutselakis, Charlotte G Cole, Celestino Creatore, Elisabeth Dawson,[...]. Nucleic Acids Res 2019
833
12

Mutational signatures: the patterns of somatic mutations hidden in cancer genomes.
Ludmil B Alexandrov, Michael R Stratton. Curr Opin Genet Dev 2014
239
11

A mutational signature reveals alterations underlying deficient homologous recombination repair in breast cancer.
Paz Polak, Jaegil Kim, Lior Z Braunstein, Rosa Karlic, Nicholas J Haradhavala, Grace Tiao, Daniel Rosebrock, Dimitri Livitz, Kirsten Kübler, Kent W Mouw,[...]. Nat Genet 2017
192
11

Evidence for APOBEC3B mutagenesis in multiple human cancers.
Michael B Burns, Nuri A Temiz, Reuben S Harris. Nat Genet 2013
436
11


Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis.
Mia Petljak, Ludmil B Alexandrov, Jonathan S Brammeld, Stacey Price, David C Wedge, Sebastian Grossmann, Kevin J Dawson, Young Seok Ju, Francesco Iorio, Jose M C Tubio,[...]. Cell 2019
97
10

Hallmarks of cancer: the next generation.
Douglas Hanahan, Robert A Weinberg. Cell 2011
10

MutationalPatterns: comprehensive genome-wide analysis of mutational processes.
Francis Blokzijl, Roel Janssen, Ruben van Boxtel, Edwin Cuppen. Genome Med 2018
155
10

APOBEC3B is an enzymatic source of mutation in breast cancer.
Michael B Burns, Lela Lackey, Michael A Carpenter, Anurag Rathore, Allison M Land, Brandon Leonard, Eric W Refsland, Delshanee Kotandeniya, Natalia Tretyakova, Jason B Nikas,[...]. Nature 2013
488
10

VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing.
Daniel C Koboldt, Qunyuan Zhang, David E Larson, Dong Shen, Michael D McLellan, Ling Lin, Christopher A Miller, Elaine R Mardis, Li Ding, Richard K Wilson. Genome Res 2012
9

Validating the concept of mutational signatures with isogenic cell models.
Xueqing Zou, Michel Owusu, Rebecca Harris, Stephen P Jackson, Joanna I Loizou, Serena Nik-Zainal. Nat Commun 2018
49
18


DeconstructSigs: delineating mutational processes in single tumors distinguishes DNA repair deficiencies and patterns of carcinoma evolution.
Rachel Rosenthal, Nicholas McGranahan, Javier Herrero, Barry S Taylor, Charles Swanton. Genome Biol 2016
412
9

Clock-like mutational processes in human somatic cells.
Ludmil B Alexandrov, Philip H Jones, David C Wedge, Julian E Sale, Peter J Campbell, Serena Nik-Zainal, Michael R Stratton. Nat Genet 2015
374
9

Patterns of somatic structural variation in human cancer genomes.
Yilong Li, Nicola D Roberts, Jeremiah A Wala, Ofer Shapira, Steven E Schumacher, Kiran Kumar, Ekta Khurana, Sebastian Waszak, Jan O Korbel, James E Haber,[...]. Nature 2020
93
9

Whole-genome sequencing reveals activation-induced cytidine deaminase signatures during indolent chronic lymphocytic leukaemia evolution.
S Kasar, J Kim, R Improgo, G Tiao, P Polak, N Haradhvala, M S Lawrence, A Kiezun, S M Fernandes, S Bahl,[...]. Nat Commun 2015
94
9

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
9

Chromothripsis from DNA damage in micronuclei.
Cheng-Zhong Zhang, Alexander Spektor, Hauke Cornils, Joshua M Francis, Emily K Jackson, Shiwei Liu, Matthew Meyerson, David Pellman. Nature 2015
490
9

Mutational signatures associated with tobacco smoking in human cancer.
Ludmil B Alexandrov, Young Seok Ju, Kerstin Haase, Peter Van Loo, Iñigo Martincorena, Serena Nik-Zainal, Yasushi Totoki, Akihiro Fujimoto, Hidewaki Nakagawa, Tatsuhiro Shibata,[...]. Science 2016
399
9

The life history of 21 breast cancers.
Serena Nik-Zainal, Peter Van Loo, David C Wedge, Ludmil B Alexandrov, Christopher D Greenman, King Wai Lau, Keiran Raine, David Jones, John Marshall, Manasa Ramakrishna,[...]. Cell 2012
796
8


Whole-genome sequencing of triple-negative breast cancers in a population-based clinical study.
Johan Staaf, Dominik Glodzik, Ana Bosch, Johan Vallon-Christersson, Christel Reuterswärd, Jari Häkkinen, Andrea Degasperi, Tauanne Dias Amarante, Lao H Saal, Cecilia Hegardt,[...]. Nat Med 2019
51
15

The cancer genome.
Michael R Stratton, Peter J Campbell, P Andrew Futreal. Nature 2009
8

Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair.
Nicholas J Haradhvala, Paz Polak, Petar Stojanov, Kyle R Covington, Eve Shinbrot, Julian M Hess, Esther Rheinbay, Jaegil Kim, Yosef E Maruvka, Lior Z Braunstein,[...]. Cell 2016
186
8

Mutational heterogeneity in cancer and the search for new cancer-associated genes.
Michael S Lawrence, Petar Stojanov, Paz Polak, Gregory V Kryukov, Kristian Cibulskis, Andrey Sivachenko, Scott L Carter, Chip Stewart, Craig H Mermel, Steven A Roberts,[...]. Nature 2013
8

The evolutionary history of 2,658 cancers.
Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C Dentro, Santiago Gonzalez, Daniel Rosebrock, Thomas J Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu,[...]. Nature 2020
158
8

Universal Patterns of Selection in Cancer and Somatic Tissues.
Iñigo Martincorena, Keiran M Raine, Moritz Gerstung, Kevin J Dawson, Kerstin Haase, Peter Van Loo, Helen Davies, Michael R Stratton, Peter J Campbell. Cell 2017
349
8

Cancer genome landscapes.
Bert Vogelstein, Nickolas Papadopoulos, Victor E Velculescu, Shibin Zhou, Luis A Diaz, Kenneth W Kinzler. Science 2013
8

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.
Isidro Cortés-Ciriano, Jake June-Koo Lee, Ruibin Xi, Dhawal Jain, Youngsook L Jung, Lixing Yang, Dmitry Gordenin, Leszek J Klimczak, Cheng-Zhong Zhang, David S Pellman,[...]. Nat Genet 2020
88
9

Clonal status of actionable driver events and the timing of mutational processes in cancer evolution.
Nicholas McGranahan, Francesco Favero, Elza C de Bruin, Nicolai Juul Birkbak, Zoltan Szallasi, Charles Swanton. Sci Transl Med 2015
344
7

Somatic mutant clones colonize the human esophagus with age.
Iñigo Martincorena, Joanna C Fowler, Agnieszka Wabik, Andrew R J Lawson, Federico Abascal, Michael W J Hall, Alex Cagan, Kasumi Murai, Krishnaa Mahbubani, Michael R Stratton,[...]. Science 2018
286
7

Tissue-specific mutation accumulation in human adult stem cells during life.
Francis Blokzijl, Joep de Ligt, Myrthe Jager, Valentina Sasselli, Sophie Roerink, Nobuo Sasaki, Meritxell Huch, Sander Boymans, Ewart Kuijk, Pjotr Prins,[...]. Nature 2016
379
7

Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal.
Jianjiong Gao, Bülent Arman Aksoy, Ugur Dogrusoz, Gideon Dresdner, Benjamin Gross, S Onur Sumer, Yichao Sun, Anders Jacobsen, Rileen Sinha, Erik Larsson,[...]. Sci Signal 2013
7

APOBEC-mediated cytosine deamination links PIK3CA helical domain mutations to human papillomavirus-driven tumor development.
Stephen Henderson, Ankur Chakravarthy, Xiaoping Su, Chris Boshoff, Tim Robert Fenton. Cell Rep 2014
195
7

Molecular portraits of human breast tumours.
C M Perou, T Sørlie, M B Eisen, M van de Rijn, S S Jeffrey, C A Rees, J R Pollack, D T Ross, H Johnsen, L A Akslen,[...]. Nature 2000
7

Criteria for inference of chromothripsis in cancer genomes.
Jan O Korbel, Peter J Campbell. Cell 2013
284
7


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.