Get 20M+ Full-Text Papers For Less Than $1.50/day. Start a 14-Day Trial for You or Your Team.

Learn More →

Clock-like mutational processes in human somatic cells

Clock-like mutational processes in human somatic cells Ludmil Alexandrov, Michael Stratton and colleagues analyze 10,250 human cancer genomes from 36 cancer types to identify mutational signatures with clock-like properties. They identify two signatures with different mutation rates that show a correlation between age at diagnosis and number of mutations in most cancer types. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Nature Genetics Springer Journals

Loading next page...
 
/lp/springer-journals/clock-like-mutational-processes-in-human-somatic-cells-rwqoSoMyqo

References (25)

  • James Street, R. Carroll, D. Ruppert (1988)

    A Note on Computing Robust Regression Estimates via Iteratively Reweighted Least Squares

    The American Statistician, 42

  • D. Conrad, Jonathan Keebler, M. DePristo, S. Lindsay, Yujun Zhang, F. Casals, Y. Idaghdour, C. Hartl, C. Torroja, K. Garimella, M. Zilversmit, R. Cartwright, G. Rouleau, M. Daly, Eric Stone, M. Hurles, P. Awadalla (2011)

    Variation in genome-wide mutation rates within and between human families

    Nature Genetics, 43

  • L. Yates, M. Gerstung, S. Knappskog, C. Desmedt, G. Gundem, P. Loo, T. Aas, L. Alexandrov, D. Larsimont, H. Davies, Yilong Li, Y. Ju, Manasa Ramakrishna, H. Haugland, P. Lilleng, S. Nik-Zainal, Stuart Mclaren, A. Butler, Sancha Martin, Dominic Glodzik, A. Menzies, K. Raine, Jonathan Hinton, David Jones, L. Mudie, B. Jiang, D. Vincent, April Greene-Colozzi, P. Adnet, Aquila Fatima, M. Maetens, M. Ignatiadis, M. Stratton, C. Sotiriou, A. Richardson, P. Lønning, D. Wedge, P. Campbell (2015)

    Subclonal diversification of primary breast cancer revealed by multiregion sequencing

    Nature medicine, 21

  • S. Behjati, Meritxell Huch, R. Boxtel, W. Karthaus, D. Wedge, Asif Tamuri, I. Martincorena, M. Petljak, L. Alexandrov, G. Gundem, P. Tarpey, Sophie Roerink, J. Blokker, M. Maddison, L. Mudie, B. Robinson, S. Nik-Zainal, P. Campbell, N. Goldman, M. Wetering, E. Cuppen, H. Clevers, M. Stratton (2014)

    Genome sequencing of normal cells reveals developmental lineages and mutational processes

    Nature, 513

  • P. Holland, R. Welsch (1977)

    Robust regression using iteratively reweighted least-squares

    Communications in Statistics-theory and Methods, 6

  • J. Welch, T. Ley, D. Link, Christopher Miller, D. Larson, D. Koboldt, L. Wartman, T. Lamprecht, Fulu Liu, Jun Xia, C. Kandoth, R. Fulton, M. McLellan, D. Dooling, J. Wallis, Ken Chen, C. Harris, Heather Schmidt, Joelle Kalicki-Veizer, Charles Lu, Qunyuan Zhang, Ling Lin, M. O'Laughlin, Joshua McMichael, K. Delehaunty, L. Fulton, V. Magrini, S. McGrath, Ryan Demeter, T. Vickery, J. Hundal, L. Cook, Gary Swift, Jerry Reed, Patricia Alldredge, T. Wylie, Jason Walker, M. Watson, S. Heath, W. Shannon, Nobish Varghese, R. Nagarajan, J. Payton, J. Baty, S. Kulkarni, J. Klco, M. Tomasson, P. Westervelt, M. Walter, T. Graubert, J. Dipersio, L. Ding, E. Mardis, R. Wilson (2012)

    The Origin and Evolution of Mutations in Acute Myeloid Leukemia

    Cell, 150

  • L. Alexandrov, S. Nik-Zainal, D. Wedge, S. Aparicio, S. Behjati, A. Biankin, G. Bignell, N. Bolli, Å. Borg, A. Børresen-Dale, S. Boyault, B. Burkhardt, A. Butler, C. Caldas, H. Davies, C. Desmedt, R. Eils, J. Eyfjörd, J. Foekens, M. Greaves, F. Hosoda, B. Hutter, Tomislav Ilicic, S. Imbeaud, Marcin Imielinsk, N. Jäger, David Jones, David Jones, S. Knappskog, M. Kool, S. Lakhani, C. López-Otín, Sancha Martin, N. Munshi, Hiromi Nakamura, P. Northcott, M. Pajic, E. Papaemmanuil, A. Paradiso, J. Pearson, X. Puente, K. Raine, Manasa Ramakrishna, A. Richardson, J. Richter, P. Rosenstiel, M. Schlesner, T. Schumacher, P. Span, J. Teague, Y. Totoki, A. Tutt, R. Valdés-Mas, Marit Buuren, L. Veer, A. Vincent-Salomon, N. Waddell, L. Yates, J. Zucman‐Rossi, P. Futreal, U. McDermott, P. Lichter, M. Meyerson, S. Grimmond, R. Siebert, E. Campo, T. Shibata, S. Pfister, P. Campbell, M. Stratton (2013)

    Signatures of mutational processes in human cancer

    Nature, 500

  • S. Nik-Zainal, D. Wedge, L. Alexandrov, M. Petljak, A. Butler, N. Bolli, H. Davies, S. Knappskog, Sancha Martin, E. Papaemmanuil, Manasa Ramakrishna, A. Shlien, I. Simonic, Yali Xue, C. Tyler-Smith, P. Campbell, M. Stratton (2014)

    Association of a germline copy number polymorphism of APOBEC3A and APOBEC3B with burden of putative APOBEC-dependent mutations in breast cancer

    Nature genetics, 46

  • L. Alexandrov, S. Nik-Zainal, D. Wedge, P. Campbell, M. Stratton (2013)

    Deciphering Signatures of Mutational Processes Operative in Human Cancer

    Cell Reports, 3

  • A. Kong, M. Frigge, G. Másson, S. Besenbacher, S. Besenbacher, P. Sulem, Gísli Magnússon, S. Gudjonsson, A. Sigurdsson, Á. Jónasdóttir, A. Jonasdottir, Wendy Wong, G. Sigurdsson, G. Walters, S. Steinberg, H. Helgason, G. Thorleifsson, D. Gudbjartsson, Agnar Helgason, Agnar Helgason, O. Magnusson, U. Thorsteinsdóttir, U. Thorsteinsdóttir, K. Stefánsson, K. Stefánsson (2012)

    Rate of de novo mutations and the importance of father’s age to disease risk

    Nature, 488

  • S. Bell, Anindya Dutta (2002)

    DNA replication in eukaryotic cells.

    Annual review of biochemistry, 71

  • Caleb Davis, C. Ricketts, Min Wang, Lixing Yang, A. Cherniack, Hui Shen, C. Buhay, Hyojin Kang, Sang Kim, Catherine Fahey, K. Hacker, G. Bhanot, D. Gordenin, Andy Chu, P. Gunaratne, Michael Biehl, S. Seth, B. Kaipparettu, C. Bristow, L. Donehower, E. Wallen, Angela Smith, S. Tickoo, P. Tamboli, V. Reuter, L. Schmidt, J. Hsieh, T. Choueiri, A. Hakimi, L. Chin, M. Meyerson, R. Kucherlapati, W. Park, A. Robertson, P. Laird, E. Henske, D. Kwiatkowski, P. Park, M. Morgan, B. Shuch, D. Muzny, D. Wheeler, W. Linehan, R. Gibbs, W. Rathmell, C. Creighton (2014)

    The somatic genomic landscape of chromophobe renal cell carcinoma.

    Cancer cell, 26 3

  • M. Gerlinger, S. Horswell, J. Larkin, A. Rowan, M. Salm, I. Varela, R. Fisher, N. Mcgranahan, N. Matthews, Claudio Santos, P. Martinez, B. Phillimore, Sharmin Begum, Adam Rabinowitz, B. Spencer‐Dene, Sakshi Gulati, P. Bates, G. Stamp, L. Pickering, M. Gore, D. Nicol, S. Hazell, P. Futreal, A. Stewart, C. Swanton (2014)

    Genomic architecture and evolution of clear cell renal cell carcinomas defined by multiregion sequencing

    Nature Genetics, 46

  • S. Nik-Zainal, L. Alexandrov, D. Wedge, P. Loo, P. Loo, C. Greenman, C. Greenman, K. Raine, David Jones, Jonathan Hinton, J. Marshall, L. Stebbings, A. Menzies, Sancha Martin, Kenric Leung, Lina Chen, Catherine Leroy, Manasa Ramakrishna, Richard Rance, K. Lau, L. Mudie, I. Varela, D. Mcbride, G. Bignell, S. Cooke, A. Shlien, John Gamble, I. Whitmore, M. Maddison, P. Tarpey, H. Davies, E. Papaemmanuil, P. Stephens, Stuart Mclaren, A. Butler, J. Teague, G. Jönsson, J. Garber, D. Silver, P. Miron, Aquila Fatima, S. Boyault, A. Langerød, A. Tutt, J. Martens, S. Aparicio, Å. Borg, A. Salomon, G. Thomas, A. Børresen-Dale, A. Børresen-Dale, A. Richardson, M. Neuberger, P. Futreal, P. Campbell, P. Campbell, M. Stratton (2012)

    Mutational Processes Molding the Genomes of 21 Breast Cancers

    Cell, 149

  • (2014)

    Transmissible [corrected] dog cancer genome reveals the origin and history of an ancient cell lineage

  • Maria Fousteri, L. Mullenders (2008)

    Transcription-coupled nucleotide excision repair in mammalian cells: molecular mechanisms and biological effects

    Cell Research, 18

  • J. Michaelson, Yujian Shi, Madhusudan Gujral, Hancheng Zheng, D. Malhotra, Xin Jin, Min Jian, Guangming Liu, Douglas Greer, A. Bhandari, Wenting Wu, R. Corominas, Á. Peoples, A. Koren, A. Gore, Shuli Kang, G. Lin, Jasper Estabillo, T. Gadomski, Balvindar Singh, Kun Zhang, N. Akshoomoff, Christina Corsello, S. Mccarroll, L. Iakoucheva, Yingrui Li, Jun Wang, J. Sebat (2012)

    Whole-Genome Sequencing in Autism Identifies Hot Spots for De Novo Germline Mutation

    Cell, 151

  • Mokhtar Abdullah (1990)

    On a Robust Correlation Coefficient

    The Statistician, 39

  • R. Wagener, L. Alexandrov, M. Montesinos-Rongen, M. Schlesner, A. Haake, H. Drexler, J. Richter, G. Bignell, Ultan McDermott, R. Siebert (2015)

    Analysis of mutational signatures in exomes from B-cell lymphoma cell lines suggest APOBEC3 family members to be involved in the pathogenesis of primary effusion lymphoma

    Leukemia, 29

  • Y. Ju, L. Alexandrov, M. Gerstung, I. Martincorena, S. Nik-Zainal, Manasa Ramakrishna, H. Davies, E. Papaemmanuil, A. Shlien, N. Bolli, S. Behjati, P. Tarpey, J. Nangalia, C. Massie, A. Butler, J. Teague, G. Vassiliou, M. Du, Ashwin Unnikrishnan, J. Pimanda, B. Teh, N. Munshi, M. Greaves, A. El-Naggar, T. Santarius, V. Collins, R. Grundy, Jack Taylor, D. Hayes, D. Malkin, C. Foster, H. Whitaker, T. Visakorpi, W. Isaacs, G. Bova, A. Flanagan, P. Futreal, A. Lynch, P. Chinnery, M. Stratton, P. Campbell, E. Provenzano, M. Vijver, A. Richardson, C. Purdie, S. Pinder, G. MacGrogan, A. Vincent-Salomon, D. Larsimont, D. Grabau, T. Sauer, Ø. Garred, A. Ehinger, G. Eynden, C. Deurzen, R. Salgado, J. Brock, S. Lakhani, D. Giri, L. Arnould, J. Jacquemier, I. Treilleux, C. Caldas, S. Chin, Aquila Fatima, A. Thompson, A. Stenhouse, J. Foekens, J. Martens, A. Sieuwerts, Arjen Brinkman, H. Stunnenberg, P. Span, F. Sweep, C. Desmedt, C. Sotiriou, G. Thomas, A. Broeks, A. Langerød, S. Aparicio, P. Simpson, L. Veer, J. Eyfjörd, H. Hilmarsdóttir, J. Jónasson, A. Børresen-Dale, Ming Lee, B. Wong, B. Tan, G. Hooijer, L. Malcovati, S. Tauro, J. Boultwood, A. Pellagatti, M. Groves, A. Sternberg, C. Gambacorti-Passerini, P. Vyas, E. Hellstrom-Lindberg, D. Bowen, N. Cross, A. Green, M. Cazzola, C. Cooper, R. Eeles, D. Wedge, P. Loo, G. Gundem, L. Alexandrov, B. Kremeyer, A. Butler, A. Lynch, S. Edwards, Niedzica Camacho, C. Massie, Z. Kote-Jarai, N. Dennis, S. Merson, J. Zamora, J. Kay, C. Corbishley, Sarah Thomas, Serena Nik-Zainai, S. O'meara, L. Matthews, Jeremy Clark, R. Hurst, R. Mithen, S. Cooke, K. Raine, David Jones, A. Menzies, L. Stebbings, Jonathan Hinton, J. Teague, Stuart Mclaren, L. Mudie, Claire Hardy, Elizabeth Anderson, O. Joseph, V. Goody, B. Robinson, M. Maddison, Stephen Gamble, C. Greenman, D. Berney, S. Hazell, N. Livni, C. Fisher, C. Ogden, Pardeep Kumar, A. Thompson, C. Woodhouse, D. Nicol, E. Mayer, T. Dudderidge, N. Shah, V. Gnanapragasam, P. Campbell, A. Futreal, D. Easton, A. Warren, C. Foster, M. Stratton, H. Whitaker, U. McDermott, D. Brewer, D. Neal (2014)

    Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer

    eLife, 3

  • T. Helleday, S. Eshtad, S. Nik-Zainal (2014)

    Mechanisms underlying mutational signatures in human cancers

    Nature Reviews Genetics, 15

  • S. Horvath (2013)

    DNA methylation age of human tissues and cell types

    Genome Biology, 14

  • L. Alexandrov, M. Stratton (2014)

    Mutational signatures: the patterns of somatic mutations hidden in cancer genomes

    Current Opinion in Genetics & Development, 24

  • N. Bolli, H. Avet-Loiseau, D. Wedge, P. Loo, L. Alexandrov, I. Martincorena, K. Dawson, F. Iorio, S. Nik-Zainal, G. Bignell, Jonathan Hinton, Yilong Li, J. Tubío, Stuart Mclaren, Sarah 'meara, Adam Butler, J. Teague, L. Mudie, Elizabeth Anderson, N. Rashid, Y. Tai, M. Shammas, A. Sperling, M. Fulciniti, P. Richardson, G. Parmigiani, F. Magrangeas, S. Minvielle, P. Moreau, M. Attal, T. Facon, P. Futreal, K. Anderson, Peter Campbell, Nikhil Munshi (2014)

    Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

    Nature Communications, 5

  • M. Stratton, P. Campbell, Peter Campbell, P. Futreal (2009)

    The cancer genome

    Nature, 458

Publisher
Springer Journals
Copyright
Copyright © 2015 by Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved.
Subject
Biomedicine; Biomedicine, general; Human Genetics; Cancer Research; Agriculture; Gene Function; Animal Genetics and Genomics
ISSN
1061-4036
eISSN
1546-1718
DOI
10.1038/ng.3441
Publisher site
See Article on Publisher Site

Abstract

Ludmil Alexandrov, Michael Stratton and colleagues analyze 10,250 human cancer genomes from 36 cancer types to identify mutational signatures with clock-like properties. They identify two signatures with different mutation rates that show a correlation between age at diagnosis and number of mutations in most cancer types.

Journal

Nature GeneticsSpringer Journals

Published: Nov 9, 2015

There are no references for this article.