Publications

2019

82. Insights into BRCA cancer predisposition from integrated germline and somatic analyses in 7632 cancers

Shawn Yost, Elise Ruark, Ludmil B Alexandrov, Nazneen Rahman (2019) JNCI Cancer Spectrum, pkz028.


81. Partially methylated domains are hypervariable in breast cancer and fuel widespread CpG island hypermethylation

Arie B Brinkman, Serena Nik-Zainal, Femke Simmer, F German Rodriguez-Gonzalez, Marcel Smid, Ludmil B Alexandrov, Adam Butler, Sancha Martin, Helen Davies, Dominik Glodzik, Xueqing Zou, Manasa Ramakrishna, Johan Staaf, Markus Ringner, Anieta Sieuwerts, Anthony Ferrari, Sandro Morganella, Thomas Fleischer, Vessela Kristensen, Marta Gut, Marc J Van De Vijver, Anne-Lise Børresen-Dale, Andrea L Richardson, Gilles Thomas, Ivo G Gut, John WM Martens, John A Foekens, Michael R Stratton, Hendrik G Stunnenberg (2019) Nature Communications 10 (1), 1749


80. Undifferentiated Sarcomas Develop through Distinct Evolutionary Pathways

Christopher D Steele, Maxime Tarabichi, Dahmane Oukrif, Amy P Webster, Hongtao Ye, Matthew Fittall, Patrick Lombard, Iñigo Martincorena, Patrick S Tarpey, Grace Collord, Kerstin Haase, Sandra J Strauss, Fitim Berisha, Heli Vaikkinen, Pawan Dhami, Marnix Jansen, Sam Behjati, M Fernanda Amary, Roberto Tirabosco, Andrew Feber, Peter J Campbell, Ludmil B Alexandrov, Peter Van Loo, Adrienne M Flanagan, Nischalan Pillay (2019) Cancer Cell 35 (3), 441-456


79. 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 MC Tubio, Ching Chiek Koh, Ilias Georgakopoulos-Soares, Bernardo Rodríguez–Martín, Burçak Otlu, Sarah O’Meara, Adam P Butler, Andrew Menzies, Shriram G Bhosle, Keiran Raine, David R Jones, Jon W Teague, Kathryn Beal, Calli Latimer, Laura O’Neill, Jorge Zamora, Elizabeth Anderson, Nikita Patel, Mark Maddison, Bee Ling Ng, Jennifer Graham, Mathew J Garnett, Ultan McDermott, Serena Nik-Zainal, Peter J Campbell, Michael R Stratton (2019) Cell 176 (6), 1282-1294


78. The Clonal Evolution of Metastatic Osteosarcoma as Shaped by Cisplatin Treatment

Samuel W Brady, Xiaotu Ma, Armita Bahrami, Gryte Satas, Gang Wu, Scott Newman, Michael Rusch, Daniel K Putnam, Heather L Mulder, Donald Yergeau, Michael N Edmonson, John Easton, Ludmil B Alexandrov, Xiang Chen, Elaine R Mardis, Richard K Wilson, James R Downing, Alberto S Pappo, Benjamin J Raphael, Michael A Dyer, Jinghui Zhang (2019) Molecular Cancer Research, 17(4):895-906


77. Stem cell replication, somatic mutations and role of randomness in the development of cancer

Vittorio Perduca, Ludmil B. Alexandrov, Michelle Kelly-Irving, Cyrille Delpierre, Hanane Omichessan, Mark P. Little, Paolo Vineis, Gianluca Sever (2019) Eur J Epidemiol, 34 (5) 439-445



2018

76. Nonnegative/Binary matrix factorization with a D-Wave quantum annealer

Daniel O’Malley , Velimir V. Vesselinov, Boian S. Alexandrov, Ludmil B. Alexandrov (2018) PLoS ONE 13(12), e0206653


75. Integrative genomic analysis of mouse and human hepatocellular carcinoma

Michelle Dow, Rachel M. Pyke, Brian Y. Tsui, Ludmil B. Alexandrov, Hayato Nakagawa, Koji Taniguchi, Ekihiro Seki, Olivier Harismendy, Shabnam Shalapour, Michael Karin, Hannah Carter, Joan Font-Burgada (2018) Proceedings of the National Academy of Sciences of the United States of America 115 (42), E9879-E9888


74. The genomic landscape of cutaneous SCC reveals drivers and a novel azathioprine associated mutational signature

Gareth J. Inman, Jun Wang, Ai Nagano, Ludmil B Alexandrov, Karin J. Purdie, Richard G. Taylor, Victoria Sherwood, Jason Thomson, Sarah Hogan, Lindsay C. Spender, Andrew P. South, Michael Stratton, Claude Chelala, Catherine A. Harwood, Charlotte M. Proby, Irene M. Leigh (2018) Nature Communications 9 (1), 3667


73. Rearrangement bursts generate canonical gene fusions in bone and soft tissue tumors

Nathaniel D Anderson, Richard de Borja, Matthew D Young, Fabio Fuligni, Andrej Rosic, Nicola D Roberts, Simon Hajjar, Mehdi Layeghifard, Ana Novokmet, Paul E Kowalski, Matthew Anaka, Scott Davidson, Mehdi Zarrei, Badr Id Said, L Christine Schreiner, Remi Marchand, Joseph Sitter, Nalan Gokgoz, Ledia Brunga, Garrett T Graham, Anthony Fullam, Nischalan Pillay, Jeffrey A Toretsky, Akihiko Yoshida, Tatsuhiro Shibata, Markus Metzler, Gino R Somers, Stephen W Scherer, Adrienne M Flanagan, Peter J Campbell, Joshua D Schiffman, Mary Shago, Ludmil B Alexandrov, Jay S Wunder, Irene L Andrulis, David Malkin, Sam Behjati, Adam Shlien (2018) Science 361 (6405), 8419


72. APOBEC mutation drives early-onset squamous cell carcinomas in recessive dystrophic epidermolysis bullosa

Raymond J Cho, Ludmil B Alexandrov, Nicoline Y den Breems, Velina S Atanasova, Mehdi Farshchian, Elizabeth Purdom, Tran N Nguyen, Cristian Coarfa, Kimal Rajapakshe, Marco Prisco, Joya Sahu, Patrick Tassone, Evan J Greenawalt, Eric A Collisson, Wei Wu, Hui Yao, Xiaoping Su, Christina Guttmann-Gruber, Josefina Piñón Hofbauer, Raabia Hashmi, Ignacia Fuentes, Stephen C Benz, Justin Golovato, Erik A Ehli, Christel M Davis, Gareth E Davies, Kyle R Covington, Dedee F Murrell, Julio C Salas-Alanis, Francis Palisson, Anna L Bruckner, William Robinson, Cristina Has, Leena Bruckner-Tuderman, Matthias Titeux, Marcel F Jonkman, Elham Rashidghamat, Su M Lwin, Jemima E Mellerio, John A McGrath, Johann W Bauer, Alain Hovnanian, Kenneth Y Tsai, Andrew P South (2018) Science Translational Medicine 10 (455), 9668


71. Genomic patterns of progression in smoldering multiple myeloma

Niccolò Bolli, Francesco Maura, Stephane Minvielle, Dominik Gloznik, Raphael Szalat, Anthony Fullam, Inigo Martincorena, Kevin J Dawson, Mehmet Kemal Samur, Jorge Zamora, Patrick Tarpey, Helen Davies, Mariateresa Fulciniti, Masood A Shammas, Yu Tzu Tai, Florence Magrangeas, Philippe Moreau, Paolo Corradini, Kenneth Anderson, Ludmil B Alexandrov, David C Wedge, Herve Avet-Loiseau, Peter Campbell, Nikhil Munshi (2018) Nature Communications 9 (1), 3363


70. Sequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets

David C Wedge, Gunes Gundem, Thomas Mitchell, Dan J Woodcock, Inigo Martincorena, Mohammed Ghori, Jorge Zamora, Adam Butler, Hayley Whitaker, Zsofia Kote-Jarai, Ludmil B Alexandrov, Peter Loo, Charlie E Massie, Stefan Dentro, Anne Y Warren, Clare Verrill, Dan M Berney, Nening Dennis, Sue Merson, Steve Hawkins, William Howat, Yong-Jie Lu, Adam Lambert, Jonathan Kay, Barbara Kremeyer, Katalin Karaszi, Hayley Luxton, Niedzica Camacho, Luke Marsden, Sandra Edwards, Lucy Matthews, Valeria Bo, Daniel Leongamornlert, Stuart McLaren, Anthony Ng, Yongwei Yu, Hongwei Zhang, Tokhir Dadaev, Sarah Thomas, Douglas F Easton, Mahbubl Ahmed, Elizabeth Bancroft, Cyril Fisher, Naomi Livni, David Nicol, Simon Tavaré, Pelvender Gill, Christopher Greenman, Vincent Khoo, Nicholas As, Pardeep Kumar, Christopher Ogden, Declan Cahill, Alan Thompson, Erik Mayer, Edward Rowe, Tim Dudderidge, Vincent Gnanapragasam, Nimish C Shah, Keiran Raine, David Jones, Andrew Menzies, Lucy Stebbings, Jon Teague, Steven Hazell, Cathy Corbishley, Johann Bono, Gerhardt Attard, William Isaacs, Tapio Visakorpi, Michael Fraser, Paul C Boutros, Robert G Bristow, Paul Workman, Chris Sander, Freddie C Hamdy, Andrew Futreal, Ultan McDermott, Bissan Al-Lazikani, Andrew G Lynch, G Steven Bova, Christopher S Foster, Daniel S Brewer, David E Neal, Colin S Cooper, Rosalind A Eeles. (2018) Nature Genetics 50 (5), 682


69. Intra-tumour diversification in colorectal cancer at the single-cell level

Sophie F Roerink, Nobuo Sasaki, Henry Lee-Six, Matthew D Young, Ludmil B Alexandrov, Sam Behjati, Thomas J Mitchell, Sebastian Grossmann, Howard Lightfoot, David A Egan, Apollo Pronk, Niels Smakman, Joost Gorp, Elizabeth Anderson, Stephen J Gamble, Chris Alder, Marc Wetering, Peter J Campbell, Michael R Stratton, Hans Clevers. (2018) Nature 556 (7702), 457


68. The origins and vulnerabilities of two transmissible cancers in Tasmanian devils

Maximilian R Stammnitz, Tim HH Coorens, Kevin C Gori, Dane Hayes, Beiyuan Fu, Jinhong Wang, Daniel E Martin-Herranz, Ludmil B Alexandrov, Adrian Baez-Ortega, Syd Barthorpe, Alexandra Beck, Francesca Giordano, Graeme W Knowles, Young Mi Kwon, George Hall, Stacey Price, Ruth J Pye, Jose MC Tubio, Hannah VT Siddle, Sukhwinder Singh Sohal, Gregory M Woods, Ultan McDermott, Fengtang Yang, Mathew J Garnett, Zemin Ning, Elizabeth P Murchison. (2018) Cancer cell 33 (4), 607-619. e15


67. Biological and prognostic impact of APOBEC-induced mutations in the spectrum of plasma cell dyscrasias and multiple myeloma cell lines

F Maura, M Petljak, M Lionetti, I Cifola, W Liang, E Pinatel, Ludmil B Alexandrov, A Fullam, I Martincorena, KJ Dawson, N Angelopoulos, MK Samur, R Szalat, J Zamora, P Tarpey, H Davies, P Corradini, KC Anderson, S Minvielle, A Neri, H Avet-Loiseau, J Keats, PJ Campbell, NC Munshi, N Bolli. (2018) Leukemia 32 (4), 1043


66. Integrative genomic profiling of large-cell neuroendocrine carcinomas reveals distinct subtypes of high-grade neuroendocrine lung tumors

Julie George, Vonn Walter, Martin Peifer, Ludmil B Alexandrov, Danila Seidel, Frauke Leenders, Lukas Maas, Christian Müller, Ilona Dahmen, Tiffany M Delhomme, Maude Ardin, Noemie Leblay, Graham Byrnes, Ruping Sun, Aurélien Reynies, Anne McLeer-Florin, Graziella Bosco, Florian Malchers, Roopika Menon, Janine Altmüller, Christian Becker, Peter Nürnberg, Viktor Achter, Ulrich Lang, Peter M Schneider, Magdalena Bogus, Matthew G Soloway, Matthew D Wilkerson, Yupeng Cun, James D McKay, Denis Moro-Sibilot, Christian G Brambilla, Sylvie Lantuejoul, Nicolas Lemaitre, Alex Soltermann, Walter Weder, Verena Tischler, Odd Terje Brustugun, Marius Lund-Iversen, Åslaug Helland, Steinar Solberg, Sascha Ansén, Gavin Wright, Benjamin Solomon, Luca Roz, Ugo Pastorino, Iver Petersen, Joachim H Clement, Jörg Sänger, Jürgen Wolf, Martin Vingron, Thomas Zander, Sven Perner, William D Travis, Stefan A Haas, Magali Olivier, Matthieu Foll, Reinhard Büttner, David Neil Hayes, Elisabeth Brambilla, Lynnette Fernandez-Cuesta, Roman K Thomas. (2018) Nature Communications 9 (1), 1048


65. Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours

Xiaotu Ma, Yu Liu, Yanling Liu, Ludmil B Alexandrov, Michael N Edmonson, Charles Gawad, Xin Zhou, Yongjin Li, Michael C Rusch, John Easton, Robert Huether, Veronica Gonzalez-Pena, Mark R Wilkinson, Leandro C Hermida, Sean Davis, Edgar Sioson, Stanley Pounds, Xueyuan Cao, Rhonda E Ries, Zhaoming Wang, Xiang Chen, Li Dong, Sharon J Diskin, Malcolm A Smith, Jaime M Guidry Auvil, Paul S Meltzer, Ching C Lau, Elizabeth J Perlman, John M Maris, Soheil Meshinchi, Stephen P Hunger, Daniela S Gerhard, Jinghui Zhang. (2018) Nature 555 (7696), 371



2017

64. The driver landscape of sporadic chordoma

Patrick S Tarpey, Sam Behjati, Matthew D Young, Inigo Martincorena, Ludmil B Alexandrov, Sarah J Farndon, Charlotte Guzzo, Claire Hardy, Calli Latimer, Adam P Butler, Jon W Teague, Adam Shlien, P Andrew Futreal, Sohrab Shah, Ali Bashashati, Farzad Jamshidi, Torsten O Nielsen, David Huntsman, Daniel Baumhoer, Sebastian Brandner, Jay Wunder, Brendan Dickson, Patricia Cogswell, Josh Sommer, Joanna J Phillips, M Fernanda Amary, Roberto Tirabosco, Nischalan Pillay, Stephen Yip, Michael R Stratton, Adrienne M Flanagan, Peter J Campbell. (2017) Nature Communications 8 (1), 890


63. Whole-genome and epigenomic landscapes of etiologically distinct subtypes of cholangiocarcinoma

Apinya Jusakul, Ioana Cutcutache, Chern Han Yong, Jing Quan Lim, Mi Ni Huang, Nisha Padmanabhan, Vishwa Nellore, Sarinya Kongpetch, Alvin Wei Tian Ng, Ley Moy Ng, Su Pin Choo, Swe Swe Myint, Raynoo Thanan, Sanjanaa Nagarajan, Weng Khong Lim, Cedric Chuan Young Ng, Arnoud Boot, Mo Liu, Choon Kiat Ong, Vikneswari Rajasegaran, Stefanus Lie, Alvin Soon Tiong Lim, Tse Hui Lim, Jing Tan, Jia Liang Loh, John R McPherson, Narong Khuntikeo, Vajaraphongsa Bhudhisawasdi, Puangrat Yongvanit, Sopit Wongkham, Yasushi Totoki, Hiromi Nakamura, Yasuhito Arai, Satoshi Yamasaki, Pierce Kah-Hoe Chow, Alexander Yaw Fui Chung, London Lucien Peng Jin Ooi, Kiat Hon Lim, Simona Dima, Dan G Duda, Irinel Popescu, Philippe Broet, Sen-Yung Hsieh, Ming-Chin Yu, Aldo Scarpa, Jiaming Lai, Di-Xian Luo, André Lopes Carvalho, André Luiz Vettore, Hyungjin Rhee, Young Nyun Park, Ludmil B Alexandrov, Raluca Gordân, Steven G Rozen, Tatsuhiro Shibata, Chawalit Pairojkul, Bin Tean Teh, Patrick Tan. (2017) Cancer Discovery 7 (10), 1116-1135


62. Evaluating the role of coherent delocalized phonon-like modes in DNA cyclization

Ludmil B Alexandrov, Kim Ø Rasmussen, Alan R Bishop, Boian S Alexandrov. (2017) Scientific Reports 7, Article number: 9731


61. Genomic evolution of breast cancer metastasis and relapse

Lucy R Yates, Stian Knappskog, David Wedge, James HR Farmery, Santiago Gonzalez, Inigo Martincorena, Ludmil B Alexandrov, Peter Van Loo, Hans Kristian Haugland, Peer Kaare Lilleng, Gunes Gundem, Moritz Gerstung, Elli Pappaemmanuil, Patrycja Gazinska, Shriram G Bhosle, David Jones, Keiran Raine, Laura Mudie, Calli Latimer, Elinor Sawyer, Christine Desmedt, Christos Sotiriou, Michael R Stratton, Anieta M Sieuwerts, Andy G Lynch, John W Martens, Andrea L Richardson, Andrew Tutt, Per Eystein Lønning, Peter J Campbell. (2017) Cancer Cell 32 (2), 169-184. e7


60. Uracil Accumulation and Mutagenesis Dominated by Cytosine Deamination in CpG Dinucleotides in Mice Lacking UNG and SMUG1

Lene Alsøe, Antonio Sarno, Sergio Carracedo, Diana Domanska, Felix Dingler, Lisa Lirussi, Tanima SenGupta, Nuriye Basdag Tekin, Laure Jobert, Ludmil B Alexandrov, Anastasia Galashevskaya, Cristina Rada, Geir Kjetil Sandve, Torbjørn Rognes, Hans E Krokan, Hilde Nilsen. (2017) Scientific Reports 7, Article number: 7199


59. Recurrent mutation of IGF signalling genes and distinct patterns of genomic rearrangement in osteosarcoma

Sam Behjati, Patrick S Tarpey, Kerstin Haase, Hongtao Ye, Matthew D Young, Ludmil B Alexandrov, Sarah J Farndon, Grace Collord, David C Wedge, Inigo Martincorena, Susanna L Cooke, Helen Davies, William Mifsud, Mathias Lidgren, Sancha Martin, Calli Latimer, Mark Maddison, Adam P Butler, Jon W Teague, Nischalan Pillay, Adam Shlien, Ultan McDermott, P Andrew Futreal, Daniel Baumhoer, Olga Zaikova, Bodil Bjerkehagen, Ola Myklebost, M Fernanda Amary, Roberto Tirabosco, Peter Van Loo, Michael R Stratton, Adrienne M Flanagan, Peter J Campbell. (2017) Nature Communications 8, 15936


58. A specific mutational signature associated with DNA 8-oxoguanine persistence in MUTYH-defective colorectal cancer

Alessandra Viel, Alessandro Bruselles, Ettore Meccia, Mara Fornasarig, Michele Quaia, Vincenzo Canzonieri, Eleonora Policicchio, Emanuele Damiano Urso, Marco Agostini, Maurizio Genuardi, Emanuela Lucci-Cordisco, Tiziana Venesio, Aline Martayan, Maria Grazia Diodoro, Lupe Sanchez-Mete, Vittoria Stigliano, Filomena Mazzei, Francesca Grasso, Alessandro Giuliani, Marta Baiocchi, Roberta Maestro, Giuseppe Giannini, Marco Tartaglia, Ludmil B Alexandrov, Margherita Bignami. (2017) EBioMedicine 20, 39-49


57. Whole-genome landscapes of major melanoma subtypes

Nicholas K Hayward, James S Wilmott, Nicola Waddell, Peter A Johansson, Matthew A Field, Katia Nones, Ann-Marie Patch, Hojabr Kakavand, Ludmil B Alexandrov, Hazel Burke, Valerie Jakrot, Stephen Kazakoff, Oliver Holmes, Conrad Leonard, Radhakrishnan Sabarinathan, Loris Mularoni, Scott Wood, Qinying Xu, Nick Waddell, Varsha Tembe, Gulietta M Pupo, Ricardo De Paoli-Iseppi, Ricardo E Vilain, Ping Shang, Loretta MS Lau, Rebecca A Dagg, Sarah-Jane Schramm, Antonia Pritchard, Ken Dutton-Regester, Felicity Newell, Anna Fitzgerald, Catherine A Shang, Sean M Grimmond, Hilda A Pickett, Jean Y Yang, Jonathan R Stretch, Andreas Behren, Richard F Kefford, Peter Hersey, Georgina V Long, Jonathan Cebon, Mark Shackleton, Andrew J Spillane, Robyn PM Saw, Núria López-Bigas, John V Pearson, John F Thompson, Richard A Scolyer, Graham J Mann. (2017) Nature 545, 175–180


56. Mutational signature analysis identifies MUTYH deficiency in colorectal cancers and adrenocortical carcinomas

Camilla Pilati, Jayendra Shinde, Ludmil B Alexandrov, Guillaume Assié, Thierry André, Zofia Hélias‐Rodzewicz, Romain Ducoudray, Delphine Le Corre, Jessica Zucman‐Rossi, Jean‐François Emile, Jérôme Bertherat, Eric Letouzé, Pierre Laurent‐Puig The Journal of Pathology 242 (1), 10-15


55. Precancer Atlas to Drive Precision Prevention Trials

Avrum Spira, Matthew B Yurgelun, Ludmil B Alexandrov, Anjana Rao, Rafael Bejar, Kornelia Polyak, Marios Giannakis, Ali Shilatifard, Olivera J Finn, Madhav Dhodapkar, Neil E Kay, Esteban Braggio, Eduardo Vilar, Sarah A Mazzilli, Timothy R Rebbeck, Judy E Garber, Victor E Velculescu, Mary L Disis, Douglas C Wallace, Scott M Lippman. (2017) Cancer Research 77 (7), 1510-1541


54. Somatic mutations reveal asymmetric cellular dynamics in the early human embryo

Young Seok Ju, Inigo Martincorena, Moritz Gerstung, Mia Petljak, Ludmil B Alexandrov, Raheleh Rahbari, David C Wedge, Helen R Davies, Manasa Ramakrishna, Anthony Fullam, Sancha Martin, Christopher Alder, Nikita Patel, Steve Gamble, Sarah O’Meara, Dilip D Giri, Torril Sauer, Sarah E Pinder, Colin A Purdie, Åke Borg, Henk Stunnenberg, Marc van de Vijver, Benita KT Tan, Carlos Caldas, Andrew Tutt, Naoto T Ueno, Laura J van’t Veer, John WM Martens, Christos Sotiriou, Stian Knappskog, Paul N Span, Sunil R Lakhani, Jórunn Erla Eyfjörd, Anne-Lise Børresen-Dale, Andrea Richardson, Alastair M Thompson, Alain Viari, Matthew E Hurles, Serena Nik-Zainal, Peter J Campbell, Michael R Stratton. (2017) Nature 543, 714–718


53. A somatic-mutational process recurrently duplicates germline susceptibility loci and tissue-specific super-enhancers in breast cancers

Dominik Glodzik, Sandro Morganella, Helen Davies, Peter T Simpson, Yilong Li, Xueqing Zou, Javier Diez-Perez, Johan Staaf, Ludmil B Alexandrov, Marcel Smid, Arie B Brinkman, Inga Hansine Rye, Hege Russnes, Keiran Raine, Colin A Purdie, Sunil R Lakhani, Alastair M Thompson, Ewan Birney, Hendrik G Stunnenberg, Marc J Van De Vijver, John WM Martens, Anne-Lise Børresen-Dale, Andrea L Richardson, Gu Kong, Alain Viari, Douglas Easton, Gerard Evan, Peter J Campbell, Michael R Stratton, Serena Nik-Zainal. (2017) Nature Genetics 49 (3), 341-348


52. Revertant mosaicism repairs skin lesions in a patient with keratitis-ichthyosis-deafness syndrome by second-site mutations in connexin 26

Sanna Gudmundsson, Maria Wilbe, Sara Ekvall, Adam Ameur, Nicola Cahill, Ludmil B Alexandrov, Marie Virtanen, Maritta Hellström Pigg, Anders Vahlquist, Hans Törmä, Marie-Louise Bondeson. (2017) Human Molecular Genetics 26 (6), 1070-1077


51. Base changes in tumour DNA have the power to reveal the causes and evolution of cancer

M Hollstein, Ludmil B Alexandrov, CP Wild, M Ardin, J Zavadil (2017) Oncogene 36 (2), 158



2016

50. Mutational signatures associated with tobacco smoking in human cancer

Ludmil B Alexandrov, Young Seok Ju, Kerstin Haase, Peter Van Loo, Inigo Martincorena, Serena Nik-Zainal, Yasushi Totoki, Akihiro Fujimoto, Hidewaki Nakagawa, Tatsuhiro Shibata, Peter J Campbell, Paolo Vineis, David H Phillips, Michael R Stratton. (2016) Science 354 (6312), 618-622


49. Association of Distinct Mutational Signatures With Correlates of Increased Immune Activity in Pancreatic Ductal Adenocarcinoma

Ashton A Connor, Robert E Denroche, Gun Ho Jang, Lee Timms, Sangeetha N Kalimuthu, Iris Selander, Treasa McPherson, Gavin W Wilson, Michelle A Chan-Seng-Yue, Ivan Borozan, Vincent Ferretti, Robert C Grant, Ilinca M Lungu, Eithne Costello, William Greenhalf, Daniel Palmer, Paula Ghaneh, John P Neoptolemos, Markus Buchler, Gloria Petersen, Sarah Thayer, Michael A Hollingsworth, Alana Sherker, Daniel Durocher, Neesha Dhani, David Hedley, Stefano Serra, Aaron Pollett, Michael HA Roehrl, Prashant Bavi, John MS Bartlett, Sean Cleary, Julie M Wilson, Ludmil B Alexandrov, Malcolm Moore, Bradly G Wouters, John D McPherson, Faiyaz Notta, Lincoln D Stein, Steven Gallinger. (2016) JAMA Oncology 3(6), 774-783


48. A renewed model of pancreatic cancer evolution based on genomic rearrangement patterns

Faiyaz Notta, Michelle Chan-Seng-Yue, Mathieu Lemire, Yilong Li, Gavin W Wilson, Ashton A Connor, Robert E Denroche, Sheng-Ben Liang, Andrew MK Brown, Jaeseung C Kim, Tao Wang, Jared T Simpson, Timothy Beck, Ayelet Borgida, Nicholas Buchner, Dianne Chadwick, Sara Hafezi-Bakhtiari, John E Dick, Lawrence Heisler, Michael A Hollingsworth, Emin Ibrahimov, Gun Ho Jang, Jeremy Johns, Lars GT Jorgensen, Calvin Law, Olga Ludkovski, Ilinca Lungu, Karen Ng, Danielle Pasternack, Gloria M Petersen, Liran I Shlush, Lee Timms, Ming-Sound Tsao, Julie M Wilson, Christina K Yung, George Zogopoulos, John MS Bartlett, Ludmil B Alexandrov, Francisco X Real, Sean P Cleary, Michael H Roehrl, John D McPherson, Lincoln D Stein, Thomas J Hudson, Peter J Campbell, Steven Gallinger. (2016) Nature 538, 378–382


47. Mutational signatures of ionizing radiation in second malignancies

Sam Behjati, Gunes Gundem, David C Wedge, Nicola D Roberts, Patrick S Tarpey, Susanna L Cooke, Peter Van Loo, Ludmil B Alexandrov, Manasa Ramakrishna, Helen Davies, Serena Nik-Zainal, Claire Hardy, Calli Latimer, Keiran M Raine, Lucy Stebbings, Andy Menzies, David Jones, Rebecca Shepherd, Adam P Butler, Jon W Teague, Mette Jorgensen, Bhavisha Khatri, Nischalan Pillay, Adam Shlien, P Andrew Futreal, Christophe Badie, ICGC Prostate Group, Ultan McDermott, G Steven Bova, Andrea L Richardson, Adrienne M Flanagan, Michael R Stratton, Peter J Campbell. (2016)Nature Communications 7 (12605)


46. Germline MC1R status influences somatic mutation burden in melanoma

Carla Daniela Robles-Espinoza, Nicola D Roberts, Shuyang Chen, Finbarr P Leacy, Ludmil B Alexandrov, Natapol Pornputtapong, Ruth Halaban, Michael Krauthammer, Rutao Cui, D Timothy Bishop, David J Adams. (2016) Nature Communications 7 (12064)


45. 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, Peter Van Loo, Young Seok Ju, Marcel Smid, Arie B Brinkman, Sandro Morganella, Miriam R Aure, Ole Christian Lingjærde, Anita Langerød, Markus Ringnér, Sung-Min Ahn, Sandrine Boyault, Jane E Brock, Annegien Broeks, Adam Butler, Christine Desmedt, Luc Dirix, Serge Dronov, Aquila Fatima, John A Foekens, Moritz Gerstung, Gerrit KJ Hooijer, Se Jin Jang, David R Jones, Hyung-Yong Kim, Tari A King, Savitri Krishnamurthy, Hee Jin Lee, Jeong-Yeon Lee, Yilong Li, Stuart McLaren, Andrew Menzies, Ville Mustonen, Sarah O’meara, Iris Pauporté, Xavier Pivot, Colin A Purdie, Keiran Raine, Kamna Ramakrishnan, F Germán Rodríguez-González, Gilles Romieu, Anieta M Sieuwerts, Peter T Simpson, Rebecca Shepherd, Lucy Stebbings, Olafur A Stefansson, Jon Teague, Stefania Tommasi, Isabelle Treilleux, Gert G Van den Eynden, Peter Vermeulen, Anne Vincent-Salomon, Lucy Yates, Carlos Caldas, Laura Van’t Veer, Andrew Tutt, Stian Knappskog, Benita Kiat Tee Tan, Jos Jonkers, Åke Borg, Naoto T Ueno, Christos Sotiriou, Alain Viari, P Andrew Futreal, Peter J Campbell, Paul N Span, Steven Van Laere, Sunil R Lakhani, Jorunn E Eyfjord, Alastair M Thompson, Ewan Birney, Hendrik G Stunnenberg, Marc J Van de Vijver, John WM Martens, Anne-Lise Børresen-Dale, Andrea L Richardson, Gu Kong, Gilles Thomas, Michael R Stratton. (2016) Nature 534 (7605), 47


44. Understanding mutagenesis through delineation of mutational signatures in human cancer

Mia Petljak, Ludmil B Alexandrov. (2016) Carcinogenesis 37 (6), 531-540


43.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, Adam Butler, Hyung-Yong Kim, Åke Borg, Christos Sotiriou, P Andrew Futreal, Peter J Campbell, Paul N Span, Steven Van Laere, Sunil R Lakhani, Jorunn E Eyfjord, Alastair M Thompson, Hendrik G Stunnenberg, Marc J van de Vijver, John WM Martens, Anne-Lise Børresen-Dale, Andrea L Richardson, Gu Kong, Gilles Thomas, Julian Sale, Cristina Rada, Michael R Stratton, Ewan Birney, Serena Nik-Zainal. (2016) Nature Communications 7 (11383)


42. Mutation allele burden remains unchanged in chronic myelomonocytic leukaemia responding to hypomethylating agents

Jane Merlevede, Nathalie Droin, Tingting Qin, Kristen Meldi, Kenichi Yoshida, Margot Morabito, Emilie Chautard, Didier Auboeuf, Pierre Fenaux, Thorsten Braun, Raphael Itzykson, Stéphane de Botton, Bruno Quesnel, Thérèse Commes, Eric Jourdan, William Vainchenker, Olivier Bernard, Noemie Pata-Merci, Stéphanie Solier, Velimir Gayevskiy, Marcel E Dinger, Mark J Cowley, Dorothée Selimoglu-Buet, Vincent Meyer, François Artiguenave, Jean-François Deleuze, Claude Preudhomme, Michael R Stratton, Ludmil B Alexandrov, Eric Padron, Seishi Ogawa, Serge Koscielny, Maria Figueroa, Eric Solary. (2016) Nature Communications 7 (10767)


41. The role of structural parameters in DNA cyclization

Ludmil B Alexandrov, Alan R Bishop, Kim Ø Rasmussen, Boian S Alexandrov. (2016) BMC Bioinformatics 17 (68), 1-10


40. Timing, rates and spectra of human germline mutation

Raheleh Rahbari, Arthur Wuster, Sarah J Lindsay, Robert J Hardwick, Ludmil B Alexandrov, Saeed Al Turki, Anna Dominiczak, Andrew Morris, David Porteous, Blair Smith, Michael R Stratton, Matthew E Hurles, UK10K Consortium. (2016) Nature Genetics 48, 126–133



2015

39. Understanding the origins of human cancer

Ludmil B Alexandrov. (2015) Science 350 (6265), 1175-1177


38. 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 . (2015) Nature Genetics 47 (12), 1402–1407


37. A mutational signature in gastric cancer suggests therapeutic strategies

Ludmil B Alexandrov, Serena Nik-Zainal, Hoi Cheong Siu, Suet Yi Leung, Michael R Stratton. (2015) Nature Communications 6 (8683)


36. The genome as a record of environmental exposure

Serena Nik-Zainal, Jill E Kucab, Sandro Morganella, Dominik Glodzik, Ludmil B Alexandrov, Volker M Arlt, Annette Weninger, Monica Hollstein, Michael R Stratton, David H Phillips . (2015) Mutagenesis 30 (6), 763-770


35. Subclonal diversification of primary breast cancer revealed by multiregion sequencing

Lucy R Yates, Moritz Gerstung, Stian Knappskog, Christine Desmedt, Gunes Gundem, Peter Van Loo, Turid Aas, Ludmil B Alexandrov, Denis Larsimont, Helen Davies, Yilong Li, Young Seok Ju, Manasa Ramakrishna, Hans Kristian Haugland, Peer Kaare Lilleng, Serena Nik-Zainal, Stuart McLaren, Adam Butler, Sancha Martin, Dominic Glodzik, Andrew Menzies, Keiran Raine, Jonathan Hinton, David Jones, Laura J Mudie, Bing Jiang, Delphine Vincent, April Greene-Colozzi, Pierre-Yves Adnet, Aquila Fatima, Marion Maetens, Michail Ignatiadis, Michael R Stratton, Christos Sotiriou, Andrea L Richardson, Per Eystein Lønning, David C Wedge, Peter J Campbell. (2015) Nature Medicine 21 (7), 751-759


34. High burden and pervasive positive selection of somatic mutations in normal human skin

Iñigo Martincorena, Amit Roshan, Moritz Gerstung, Peter Ellis, Peter Van Loo, Stuart McLaren, David C Wedge, Anthony Fullam, Ludmil B Alexandrov, Jose M Tubio, Lucy Stebbings, Andrew Menzies, Sara Widaa, Michael R Stratton, Philip H Jones, Peter J Campbell . (2015) Science 348 (6237), 880-886


33. The evolutionary history of lethal metastatic prostate cancer

Gunes Gundem, Peter Van Loo, Barbara Kremeyer, Ludmil B Alexandrov, Jose MC Tubio, Elli Papaemmanuil, Daniel S Brewer, Heini ML Kallio, Gunilla Högnäs, Matti Annala, Kati Kivinummi, Victoria Goody, Calli Latimer, Sarah O'Meara, Kevin J Dawson, William Isaacs, Michael R Emmert-Buck, Matti Nykter, Christopher Foster, Zsofia Kote-Jarai, Douglas Easton, Hayley C Whitaker, ICGC Prostate UK Group, David E Neal, Colin S Cooper, Rosalind A Eeles, Tapio Visakorpi, Peter J Campbell, Ultan McDermott, David C Wedge, G Steven Bova. (2015) Nature 520 (7547), 353–357


32. Tracking the origins and drivers of subclonal metastatic expansion in prostate cancer

Matthew KH Hong, Geoff Macintyre, David C Wedge, Peter Van Loo, Keval Patel, Sebastian Lunke, Ludmil B Alexandrov, Clare Sloggett, Marek Cmero, Francesco Marass, Dana Tsui, Stefano Mangiola, Andrew Lonie, Haroon Naeem, Nikhil Sapre, Pramit M Phal, Natalie Kurganovs, Xiaowen Chin, Michael Kerger, Anne Y Warren, David Neal, Vincent Gnanapragasam, Nitzan Rosenfeld, John S Pedersen, Andrew Ryan, Izhak Haviv, Anthony J Costello, Niall M Corcoran, Christopher M Hovens. (2015) Nature Communications 6 (6605)


31. Analysis of the genetic phylogeny of multifocal prostate cancer identifies multiple independent clonal expansions in neoplastic and morphologically normal prostate tissue

Colin S Cooper, Rosalind Eeles, David C Wedge, Peter Van Loo, Gunes Gundem, Ludmil B Alexandrov, Barbara Kremeyer, Adam Butler, Andrew G Lynch, Niedzica Camacho, Charlie E Massie, Jonathan Kay, Hayley J Luxton, Sandra Edwards, Zsofia Kote-Jarai, Nening Dennis, Sue Merson, Daniel Leongamornlert, Jorge Zamora, Cathy Corbishley, Sarah Thomas, Serena Nik-Zainal, Sarah O'Meara, Lucy Matthews, Jeremy Clark, Rachel Hurst, Richard Mithen, Robert G Bristow, Paul C Boutros, Michael Fraser, Susanna Cooke, Keiran Raine, David Jones, Andrew Menzies, Lucy Stebbings, Jon Hinton, Jon Teague, Stuart McLaren, Laura Mudie, Claire Hardy, Elizabeth Anderson, Olivia Joseph, Victoria Goody, Ben Robinson, Mark Maddison, Stephen Gamble, Christopher Greenman, Dan Berney, Steven Hazell, Naomi Livni, Cyril Fisher, Christopher Ogden, Pardeep Kumar, Alan Thompson, Christopher Woodhouse, David Nicol, Erik Mayer, Tim Dudderidge, Nimish C Shah, Vincent Gnanapragasam, Thierry Voet, Peter Campbell, Andrew Futreal, Douglas Easton, Anne Y Warren, Christopher S Foster, Michael R Stratton, Hayley C Whitaker, Ultan McDermott, Daniel S Brewer, David E Neal . (2015) Nature Genetics 47 (4), 367-372


30. Exome sequencing of hepatocellular carcinomas identifies new mutational signatures and potential therapeutic targets

Kornelius Schulze, Sandrine Imbeaud, Eric Letouzé, Ludmil B Alexandrov, Julien Calderaro, Sandra Rebouissou, Gabrielle Couchy, Clément Meiller, Jayendra Shinde, Frederic Soysouvanh, Anna-Line Calatayud, Roser Pinyol, Laura Pelletier, Charles Balabaud, Alexis Laurent, Jean-Frederic Blanc, Vincenzo Mazzaferro, Fabien Calvo, Augusto Villanueva, Jean-Charles Nault, Paulette Bioulac-Sage, Michael R Stratton, Josep M Llovet, Jessica Zucman-Rossi. (2015) Nature Genetics 47 (5), 505–511


29. SETD2 loss-of-function promotes renal cancer branched evolution through replication stress and impaired DNA repair

N Kanu, E Grönroos, P Martinez, RA Burrell, X Yi Goh, J Bartkova, A Maya-Mendoza, M Mistrík, AJ Rowan, H Patel, A Rabinowitz, P East, G Wilson, CR Santos, N McGranahan, S Gulati, M Gerlinger, NJ Birkbak, T Joshi, Ludmil B Alexandrov, MR Stratton, T Powles, N Matthews, PA Bates, A Stewart, Z Szallasi, J Larkin, J Bartek, C Swanton. (2015) Oncogene 34, 5699-5708


28. 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

R Wagener, Ludmil B Alexandrov, M Montesinos-Rongen, M Schlesner, A Haake, HG Drexler, J Richter, GR Bignell, U McDermott, R Siebert . (2015) Leukemia 29, 1612-1615


27. Combined hereditary and somatic mutations of replication error repair genes result in rapid onset of ultra-hypermutated cancers

Adam Shlien, Brittany B Campbell, Richard de Borja, Ludmil B Alexandrov, Daniele Merico, David Wedge, Peter Van Loo, Patrick S Tarpey, Paul Coupland, Sam Behjati, Aaron Pollett, Tatiana Lipman, Abolfazl Heidari, Shriya Deshmukh, Na'ama Avitzur, Bettina Meier, Moritz Gerstung, Ye Hong, Diana M Merino, Manasa Ramakrishna, Marc Remke, Roland Arnold, Gagan B Panigrahi, Neha P Thakkar, Karl P Hodel, Erin E Henninger, A Yasemin Göksenin, Doua Bakry, George S Charames, Harriet Druker, Jordan Lerner-Ellis, Matthew Mistry, Rina Dvir, Ronald Grant, Ronit Elhasid, Roula Farah, Glenn P Taylor, Paul C Nathan, Sarah Alexander, Shay Ben-Shachar, Simon C Ling, Steven Gallinger, Shlomi Constantini, Peter Dirks, Annie Huang, Stephen W Scherer, Richard G Grundy, Carol Durno, Melyssa Aronson, Anton Gartner, M Stephen Meyn, Michael D Taylor, Zachary F Pursell, Christopher E Pearson, David Malkin, P Andrew Futreal, Michael R Stratton, Eric Bouffet, Cynthia Hawkins, Peter J Campbell, Uri Tabori, Biallelic Mismatch Repair Deficiency Consortium . (2015) Nature Genetics 47 (3), 257–262



2014

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

Young Seok Ju, Ludmil B Alexandrov, Moritz Gerstung, Inigo Martincorena, Serena Nik-Zainal, Manasa Ramakrishna, Helen R Davies, Elli Papaemmanuil, Gunes Gundem, Adam Shlien, Niccolo Bolli, Sam Behjati, Patrick S Tarpey, Jyoti Nangalia, Charles E Massie, Adam P Butler, Jon W Teague, George S Vassiliou, Anthony R Green, Ming-Qing Du, Ashwin Unnikrishnan, John E Pimanda, Bin Tean Teh, Nikhil Munshi, Mel Greaves, Paresh Vyas, Adel K El-Naggar, Tom Santarius, V Peter Collins, Richard Grundy, Jack A Taylor, D Neil Hayes, David Malkin, Christopher S Foster, Anne Y Warren, Hayley C Whitaker, Daniel Brewer, Rosalind Eeles, Colin Cooper, David Neal, Tapio Visakorpi, William B Isaacs, G Steven Bova, Adrienne M Flanagan, P Andrew Futreal, Andy G Lynch, Patrick F Chinnery, Ultan McDermott, Michael R Stratton, Peter J Campbell, ICGC Breast Cancer Group, ICGC Chronic Myeloid Disorders Group, ICGC Prostate Cancer Group . (2014) eLife 3, e02935


25. C. elegans whole-genome sequencing reveals mutational signatures related to carcinogens and DNA repair deficiency

Bettina Meier, Susanna L Cooke, Joerg Weiss, Aymeric P Bailly, Ludmil B Alexandrov, John Marshall, Keiran Raine, Mark Maddison, Elizabeth Anderson, Michael R Stratton, Anton Gartner, Peter J Campbell . (2014) Genome Research 24 (10), 1624-1636


24. Genome sequencing of normal cells reveals developmental lineages and mutational processes

Sam Behjati, Meritxell Huch, Ruben van Boxtel, Wouter Karthaus, David C Wedge, Asif U Tamuri, Inigo Martincorena, Mia Petljak, Ludmil B Alexandrov, Gunes Gundem, Patrick S Tarpey, Sophie Roerink, Joyce Blokker, Mark Maddison, Laura Mudie, Ben Robinson, Serena Nik-Zainal, Peter Campbell, Nick Goldman, Marc van de Wetering, Edwin Cuppen, Hans Clevers, Michael R Stratton . (2014) Nature 513 (7518), 422


23. Fast randomization of large genomic datasets while preserving alteration counts

Andrea Gobbi, Francesco Iorio, Kevin J Dawson, David C Wedge, David Tamborero, Ludmil B Alexandrov, Nuria Lopez-Bigas, Mathew J Garnett, Giuseppe Jurman, Julio Saez-Rodriguez . (2014) Bioinformatics 30 (17), i617-i623


22. Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes

Jose MC Tubio, Yilong Li, Young Seok Ju, Inigo Martincorena, Susanna L Cooke, Marta Tojo, Gunes Gundem, Christodoulos P Pipinikas, Jorge Zamora, Keiran Raine, Andrew Menzies, Pablo Roman-Garcia, Anthony Fullam, Moritz Gerstung, Adam Shlien, Patrick S Tarpey, Elli Papaemmanuil, Stian Knappskog, Peter Van Loo, Manasa Ramakrishna, Helen R Davies, John Marshall, David C Wedge, Jon W Teague, Adam P Butler, Serena Nik-Zainal, Ludmil B Alexandrov, Sam Behjati, Lucy R Yates, Niccolo Bolli, Laura Mudie, Claire Hardy, Sancha Martin, Stuart McLaren, Sarah O’Meara, Elizabeth Anderson, Mark Maddison, Stephen Gamble, Christopher Foster, Anne Y Warren, Hayley Whitaker, Daniel Brewer, Rosalind Eeles, Colin Cooper, David Neal, Andy G Lynch, Tapio Visakorpi, William B Isaacs, Laura van't Veer, Carlos Caldas, Christine Desmedt, Christos Sotiriou, Sam Aparicio, John A Foekens, Jórunn Erla Eyfjörd, Sunil R Lakhani, Gilles Thomas, Ola Myklebost, Paul N Span, Anne-Lise Børresen-Dale, Andrea L Richardson, Marc Van de Vijver, Anne Vincent-Salomon, Gert G Van den Eynden, Adrienne M Flanagan, P Andrew Futreal, Sam M Janes, G Steven Bova, Michael R Stratton, Ultan McDermott, Peter J Campbell . (2014) Science 345 (6196), 1251343


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

Serena Nik-Zainal, David C Wedge, Ludmil B Alexandrov, Mia Petljak, Adam P Butler, Niccolo Bolli, Helen R Davies, Stian Knappskog, Sancha Martin, Elli Papaemmanuil, Manasa Ramakrishna, Adam Shlien, Ingrid Simonic, Yali Xue, Chris Tyler-Smith, Peter J Campbell, Michael R Stratton. (2014) Nature Genetics 46 (5), 487–491


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

Ludmil B Alexandrov, Michael R Stratton. (2014) Current Opinion in Genetics & Development 24, 52-60


19. Transmissable Dog Cancer Genome Reveals the Origin and History of an Ancient Cell Lineage

Elizabeth P Murchison, David C Wedge, Ludmil B Alexandrov, Beiyuan Fu, Inigo Martincorena, Zemin Ning, Jose MC Tubio, Emma I Werner, Jan Allen, Andrigo Barboza De Nardi, Edward M Donelan, Gabriele Marino, Ariberto Fassati, Peter J Campbell, Fengtang Yang, Austin Burt, Robin A Weiss, Michael R Stratton . (2014) Science 343 (6169), 437-440

18. Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

Niccolo Bolli, Hervé Avet-Loiseau, David C Wedge, Peter Van Loo, Ludmil B Alexandrov, Inigo Martincorena, Kevin J Dawson, Francesco Iorio, Serena Nik-Zainal, Graham R Bignell, Jonathan W Hinton, Yilong Li, Jose MC Tubio, Stuart McLaren, Sarah O'Meara, Adam P Butler, Jon W Teague, Laura Mudie, Elizabeth Anderson, Naim Rashid, Yu-Tzu Tai, Masood A Shammas, Adam S Sperling, Mariateresa Fulciniti, Paul G Richardson, Giovanni Parmigiani, Florence Magrangeas, Stephane Minvielle, Philippe Moreau, Michel Attal, Thierry Facon, P Andrew Futreal, Kenneth C Anderson, Peter J Campbell, Nikhil C Munshi. (2014) Nature Communications 5 (2997)


17. RAG-mediated recombination is the predominant driver of oncogenic rearrangement in ETV6-RUNX1 acute lymphoblastic leukemia

Elli Papaemmanuil, Inmaculada Rapado, Yilong Li, Nicola E Potter, David C Wedge, Jose Tubio, Ludmil B Alexandrov, Peter Van Loo, Susanna L Cooke, John Marshall, Inigo Martincorena, Jonathan Hinton, Gunes Gundem, Frederik W van Delft, Serena Nik-Zainal, David R Jones, Manasa Ramakrishna, Ian Titley, Lucy Stebbings, Catherine Leroy, Andrew Menzies, John Gamble, Ben Robinson, Laura Mudie, Keiran Raine, Sarah O'Meara, Jon W Teague, Adam P Butler, Giovanni Cazzaniga, Andrea Biondi, Jan Zuna, Helena Kempski, Markus Muschen, Anthony M Ford, Michael R Stratton, Mel Greaves, Peter J Campbell. (2014) Nature Genetics 46 (2), 116–125



2013

16. Inactivating CUX1 mutations promote tumorigenesis

Chi C Wong, Inigo Martincorena, Alistair G Rust, Mamunur Rashid, Constantine Alifrangis, Ludmil B Alexandrov, Jessamy C Tiffen, Christina Kober, Anthony R Green, Charles E Massie, Jyoti Nangalia, Stella Lempidaki, Hartmut Döhner, Konstanze Döhner, Sarah J Bray, Ultan McDermott, Elli Papaemmanuil, Peter J Campbell, David J Adams, Chronic Myeloid Disorders Working Group of the International Cancer Genome Consortium. (2013) Nature Genetics 46 (1), 33-38


15. Signatures of mutational processes in human cancer

Ludmil B Alexandrov, Serena Nik-Zainal, David C Wedge, Samuel AJR Aparicio, Sam Behjati, Andrew V Biankin, Graham R Bignell, Niccolò Bolli, Ake Borg, Anne-Lise Børresen-Dale, Sandrine Boyault, Birgit Burkhardt, Adam P Butler, Carlos Caldas, Helen R Davies, Christine Desmedt, Roland Eils, Jórunn Erla Eyfjörd, John A Foekens, Mel Greaves, Fumie Hosoda, Barbara Hutter, Tomislav Ilicic, Sandrine Imbeaud, Marcin Imielinsk, Natalie Jäger, David TW Jones, David Jones, Stian Knappskog, Marcel Kool, Sunil R Lakhani, Carlos López-Otín, Sancha Martin, Nikhil C Munshi, Hiromi Nakamura, Paul A Northcott, Marina Pajic, Elli Papaemmanuil, Angelo Paradiso, John V Pearson, Xose S Puente, Keiran Raine, Manasa Ramakrishna, Andrea L Richardson, Julia Richter, Philip Rosenstiel, Matthias Schlesner, Ton N Schumacher, Paul N Span, Jon W Teague, Yasushi Totoki, Andrew NJ Tutt, Rafael Valdés-Mas, Marit M van Buuren, Laura van’t Veer, Anne Vincent-Salomon, Nicola Waddell, Lucy R Yates, ICGC PedBrain, Jessica Zucman-Rossi, P Andrew Futreal, Ultan McDermott, Peter Lichter, Matthew Meyerson, Sean M Grimmond, Reiner Siebert, Elías Campo, Tatsuhiro Shibata, Stefan M Pfister, Peter J Campbell, Michael R Stratton, Australian Pancreatic Cancer Genome Initiative, ICGC Breast Cancer Consortium, ICGC MMML-Seq Consortium. (2013) Nature 500 (7463), 415-421


14. Specificity and Heterogeneity of Terahertz Radiation Effect on Gene Expression in Mouse Mesenchymal Stem Cells

Boian S Alexandrov, M Lisa Phipps, Ludmil B Alexandrov, Layla G Booshehri, Anna Erat, Janice Zabolotny, Charles H Mielke, Hou-Tong Chen, George Rodriguez, Kim Ø Rasmussen, Jennifer S Martinez, Alan R Bishop, Anny Usheva. (2013) Scientific Reports 3, Article number: 1184


13. Binding of nucleoid-associated protein Fis to DNA is regulated by DNA breathing dynamics

Kristy Nowak-Lovato, Ludmil B Alexandrov, Afsheen Banisadr, Amy L Bauer, Alan R Bishop, Anny Usheva, Fangping Mu, Elizabeth Hong-Geller, Kim Ø Rasmussen, William S Hlavacek, Boian S Alexandrov. (2013) PLOS Computational Biology 9 (1), e1002881


12. Deciphering Signatures of Mutational Processes Operative in Human Cancer

Ludmil B Alexandrov, Serena Nik-Zainal, David C Wedge, Peter J Campbell, Michael R Stratton. (2013) Cell Reports 3 (1), 246-259



2012

11. Mutational Processes Molding the Genomes of 21 Breast Cancers

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 WM Martens, Samuel AJR 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 . (2012) Cell 149 (5), 979-993


10. 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, Adam Shlien, Susanna L Cooke, Jonathan Hinton, Andrew Menzies, Lucy A Stebbings, Catherine Leroy, Mingming Jia, Richard Rance, Laura J Mudie, Stephen J Gamble, Philip J Stephens, Stuart McLaren, Patrick S Tarpey, Elli Papaemmanuil, Helen R Davies, Ignacio Varela, David J McBride, Graham R Bignell, Kenric Leung, Adam P Butler, Jon W Teague, Sancha Martin, Goran Jönsson, Odette Mariani, Sandrine Boyault, Penelope Miron, Aquila Fatima, Anita Langerød, Samuel AJR Aparicio, Andrew Tutt, Anieta M Sieuwerts, Åke Borg, Gilles Thomas, Anne Vincent Salomon, Andrea L Richardson, Anne-Lise Børresen-Dale, P Andrew Futreal, Michael R Stratton, Peter J Campbell. (2012) Cell 149 (5), 994-1007


9. Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

Elizabeth P Murchison, Ole B Schulz-Trieglaff, Zemin Ning, Ludmil B Alexandrov, Markus J Bauer, Beiyuan Fu, Matthew Hims, Zhihao Ding, Sergii Ivakhno, Caitlin Stewart, Bee Ling Ng, Wendy Wong, Bronwen Aken, Simon White, Amber Alsop, Jennifer Becq, Graham R Bignell, R Keira Cheetham, William Cheng, Thomas R Connor, Anthony J Cox, Zhi-Ping Feng, Yong Gu, Russell J Grocock, Simon R Harris, Irina Khrebtukova, Zoya Kingsbury, Mark Kowarsky, Alexandre Kreiss, Shujun Luo, John Marshall, David J McBride, Lisa Murray, Anne-Maree Pearse, Keiran Raine, Isabelle Rasolonjatovo, Richard Shaw, Philip Tedder, Carolyn Tregidgo, Albert J Vilella, David C Wedge, Gregory M Woods, Niall Gormley, Sean Humphray, Gary Schroth, Geoffrey Smith, Kevin Hall, Stephen MJ Searle, Nigel P Carter, Anthony T Papenfuss, P Andrew Futreal, Peter J Campbell, Fengtang Yang, David R Bentley, Dirk J Evers, Michael R Stratton . (2012) Cell 148 (4), 780-791



2011

8. Non-thermal effects of terahertz radiation on gene expression in mouse stem cells

Boian S Alexandrov, Kim Ø Rasmussen, Alan R Bishop, Anny Usheva, Ludmil B Alexandrov, Shou Chong, Yossi Dagon, Layla G Booshehri, Charles H Mielke, M Lisa Phipps, Jennifer S Martinez, Hou-Tong Chen, George Rodriguez. (2011) Biomedical Optics Express 2 (9), 2679-2689


7. DNA dynamics is likely to be a factor in the genomic nucleotide repeats expansions related to diseases

Boian S Alexandrov, Vlad I Valtchinov, Ludmil B Alexandrov, Vladimir Gelev, Yossi Dagon, Jonathan Bock, Isaac S Kohane, Kim Ø Rasmussen, Alan R Bishop, Anny Usheva . (2011) PLoS ONE 6 (5), e19800



2010

6. Mammalian stem cells reprogramming in response to terahertz radiation

Jonathan Bock, Yayoi Fukuyo, Sona Kang, M Lisa Phipps, Ludmil B Alexandrov, Kim Ø Rasmussen, Alan R Bishop, Evan D Rosen, Jennifer S Martinez, Hou-Tong Chen, George Rodriguez, Boian S Alexandrov, Anny Usheva. (2010) PLoS ONE 5 (12), e15806


5. DNA dynamics play a role as a basal transcription factor in the positioning and regulation of gene transcription initiation

Boian S Alexandrov, Vladimir Gelev, Sang Wook Yoo, Ludmil B Alexandrov, Yayoi Fukuyo, Alan R Bishop, Kim Ø Rasmussen, Anny Usheva. (2010) Nucleic Acids Research (12), e15806



2009

4. Computer Modeling Describes Gravity-Related Adaptation in Cell Cultures

Ludmil B Alexandrov, Stoyana Alexandrova, Anny Usheva. (2009) PLoS ONE 4 (12), e8332


3. A nonlinear dynamic model of DNA with a sequence-dependent stacking term

Boian S Alexandrov, Vladimir Gelev, Yevgeniya Monisova, Ludmil B Alexandrov, Alan R Bishop, Kim Ø Rasmussen, Anny Usheva . (2009) Nucleic Acids Research 37 (7), 2405-2410



2007

2. Modelling the magnetic signature of neuronal tissue

KB Blagoev, B Mihaila, BJ Travis, Ludmil B Alexandrov, AR Bishop, D Ranken, S Posse, C Gasparovic, A Mayer, CJ Aine, I Ulbert, M Morita, W Müller, J Connor, E Halgren. (2007) NeuroImage 37 (1), 137-148



2005

1. MRI of neural currents: numerical study

KB Blagoev, B Mihaila, Ludmil B Alexandrov, BJ Travis, I Ulbert, E Halgren, VJ Wedeen . (2005) Proc Int Soc Magn Reson Med 13, 1425