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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes</title><author><name sortKey="Tubio, Jose M C" sort="Tubio, Jose M C" uniqKey="Tubio J" first="Jose M. C." last="Tubio">Jose M. C. Tubio</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Li, Yilong" sort="Li, Yilong" uniqKey="Li Y" first="Yilong" last="Li">Yilong Li</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Ju, Young Seok" sort="Ju, Young Seok" uniqKey="Ju Y" first="Young Seok" last="Ju">Young Seok Ju</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Martincorena, Inigo" sort="Martincorena, Inigo" uniqKey="Martincorena I" first="Inigo" last="Martincorena">Inigo Martincorena</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Cooke, Susanna L" sort="Cooke, Susanna L" uniqKey="Cooke S" first="Susanna L." last="Cooke">Susanna L. Cooke</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Tojo, Marta" sort="Tojo, Marta" uniqKey="Tojo M" first="Marta" last="Tojo">Marta Tojo</name><affiliation><nlm:aff id="A2">Department of Physiology, School of Medicine–Center for Resesarch in Molecular Medicine and Chronic Diseases, Instituto de Investigaciones Sanitarias, University of Santiago de Compostela, Spain.</nlm:aff></affiliation></author><author><name sortKey="Gundem, Gunes" sort="Gundem, Gunes" uniqKey="Gundem G" first="Gunes" last="Gundem">Gunes Gundem</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Pipinikas, Christodoulos P" sort="Pipinikas, Christodoulos P" uniqKey="Pipinikas C" first="Christodoulos P." last="Pipinikas">Christodoulos P. Pipinikas</name><affiliation><nlm:aff id="A3">Lungs for Living Research Centre, Rayne Institute, University College London (UCL), London, UK.</nlm:aff></affiliation></author><author><name sortKey="Zamora, Jorge" sort="Zamora, Jorge" uniqKey="Zamora J" first="Jorge" last="Zamora">Jorge Zamora</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Raine, Keiran" sort="Raine, Keiran" uniqKey="Raine K" first="Keiran" last="Raine">Keiran Raine</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Menzies, Andrew" sort="Menzies, Andrew" uniqKey="Menzies A" first="Andrew" last="Menzies">Andrew Menzies</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Roman Garcia, Pablo" sort="Roman Garcia, Pablo" uniqKey="Roman Garcia P" first="Pablo" last="Roman-Garcia">Pablo Roman-Garcia</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Fullam, Anthony" sort="Fullam, Anthony" uniqKey="Fullam A" first="Anthony" last="Fullam">Anthony Fullam</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Gerstung, Moritz" sort="Gerstung, Moritz" uniqKey="Gerstung M" first="Moritz" last="Gerstung">Moritz Gerstung</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Shlien, Adam" sort="Shlien, Adam" uniqKey="Shlien A" first="Adam" last="Shlien">Adam Shlien</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Tarpey, Patrick S" sort="Tarpey, Patrick S" uniqKey="Tarpey P" first="Patrick S." last="Tarpey">Patrick S. Tarpey</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Papaemmanuil, Elli" sort="Papaemmanuil, Elli" uniqKey="Papaemmanuil E" first="Elli" last="Papaemmanuil">Elli Papaemmanuil</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Knappskog, Stian" sort="Knappskog, Stian" uniqKey="Knappskog S" first="Stian" last="Knappskog">Stian Knappskog</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A4">Department of Clinical Science, University of Bergen, Bergen, Norway.</nlm:aff></affiliation><affiliation><nlm:aff id="A5">Department of Oncology, Haukeland University Hospital, Bergen, Norway.</nlm:aff></affiliation></author><author><name sortKey="Van Loo, Peter" sort="Van Loo, Peter" uniqKey="Van Loo P" first="Peter" last="Van Loo">Peter Van Loo</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A6">Human Genome Laboratory, Department of Human Genetics, VIB and KU Leuven, Leuven, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Ramakrishna, Manasa" sort="Ramakrishna, Manasa" uniqKey="Ramakrishna M" first="Manasa" last="Ramakrishna">Manasa Ramakrishna</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Davies, Helen R" sort="Davies, Helen R" uniqKey="Davies H" first="Helen R." last="Davies">Helen R. Davies</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Marshall, John" sort="Marshall, John" uniqKey="Marshall J" first="John" last="Marshall">John Marshall</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Wedge, David C" sort="Wedge, David C" uniqKey="Wedge D" first="David C." last="Wedge">David C. Wedge</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Teague, Jon W" sort="Teague, Jon W" uniqKey="Teague J" first="Jon W." last="Teague">Jon W. Teague</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Butler, Adam P" sort="Butler, Adam P" uniqKey="Butler A" first="Adam P." last="Butler">Adam P. Butler</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Nik Zainal, Serena" sort="Nik Zainal, Serena" uniqKey="Nik Zainal S" first="Serena" last="Nik-Zainal">Serena Nik-Zainal</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Alexandrov, Ludmil" sort="Alexandrov, Ludmil" uniqKey="Alexandrov L" first="Ludmil" last="Alexandrov">Ludmil Alexandrov</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Behjati, Sam" sort="Behjati, Sam" uniqKey="Behjati S" first="Sam" last="Behjati">Sam Behjati</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Yates, Lucy R" sort="Yates, Lucy R" uniqKey="Yates L" first="Lucy R." last="Yates">Lucy R. Yates</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Bolli, Niccolo" sort="Bolli, Niccolo" uniqKey="Bolli N" first="Niccolo" last="Bolli">Niccolo Bolli</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A33">Department of Haematology, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Mudie, Laura" sort="Mudie, Laura" uniqKey="Mudie L" first="Laura" last="Mudie">Laura Mudie</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Hardy, Claire" sort="Hardy, Claire" uniqKey="Hardy C" first="Claire" last="Hardy">Claire Hardy</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Martin, Sancha" sort="Martin, Sancha" uniqKey="Martin S" first="Sancha" last="Martin">Sancha Martin</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Mclaren, Stuart" sort="Mclaren, Stuart" uniqKey="Mclaren S" first="Stuart" last="Mclaren">Stuart Mclaren</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="O Meara, Sarah" sort="O Meara, Sarah" uniqKey="O Meara S" first="Sarah" last="O'Meara">Sarah O'Meara</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Anderson, Elizabeth" sort="Anderson, Elizabeth" uniqKey="Anderson E" first="Elizabeth" last="Anderson">Elizabeth Anderson</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Maddison, Mark" sort="Maddison, Mark" uniqKey="Maddison M" first="Mark" last="Maddison">Mark Maddison</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Gamble, Stephen" sort="Gamble, Stephen" uniqKey="Gamble S" first="Stephen" last="Gamble">Stephen Gamble</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Foster, Christopher" sort="Foster, Christopher" uniqKey="Foster C" first="Christopher" last="Foster">Christopher Foster</name><affiliation><nlm:aff id="A9">University of Liverpool and HCA Pathology Laboratories, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Warren, Anne Y" sort="Warren, Anne Y" uniqKey="Warren A" first="Anne Y." last="Warren">Anne Y. Warren</name><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Whitaker, Hayley" sort="Whitaker, Hayley" uniqKey="Whitaker H" first="Hayley" last="Whitaker">Hayley Whitaker</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Brewer, Daniel" sort="Brewer, Daniel" uniqKey="Brewer D" first="Daniel" last="Brewer">Daniel Brewer</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A11">University of East Anglia, Norwich, UK.</nlm:aff></affiliation></author><author><name sortKey="Eeles, Rosalind" sort="Eeles, Rosalind" uniqKey="Eeles R" first="Rosalind" last="Eeles">Rosalind Eeles</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Cooper, Colin" sort="Cooper, Colin" uniqKey="Cooper C" first="Colin" last="Cooper">Colin Cooper</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A11">University of East Anglia, Norwich, UK.</nlm:aff></affiliation></author><author><name sortKey="Neal, David" sort="Neal, David" uniqKey="Neal D" first="David" last="Neal">David Neal</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Lynch, Andy G" sort="Lynch, Andy G" uniqKey="Lynch A" first="Andy G." last="Lynch">Andy G. Lynch</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Visakorpi, Tapio" sort="Visakorpi, Tapio" uniqKey="Visakorpi T" first="Tapio" last="Visakorpi">Tapio Visakorpi</name><affiliation><nlm:aff id="A12">Institute of Biosciences and Medical Technology–BioMediTech, University of Tampere and Tampere University Hospital, Tampere, Finland.</nlm:aff></affiliation></author><author><name sortKey="Isaacs, William B" sort="Isaacs, William B" uniqKey="Isaacs W" first="William B." last="Isaacs">William B. Isaacs</name><affiliation><nlm:aff id="A13">Johns Hopkins University, Baltimore, MD, USA.</nlm:aff></affiliation></author><author><name sortKey="Veer, Laura Van T" sort="Veer, Laura Van T" uniqKey="Veer L" first="Laura Van'T" last="Veer">Laura Van'T Veer</name><affiliation><nlm:aff id="A14">Netherlands Cancer Institute, Amsterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Caldas, Carlos" sort="Caldas, Carlos" uniqKey="Caldas C" first="Carlos" last="Caldas">Carlos Caldas</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Desmedt, Christine" sort="Desmedt, Christine" uniqKey="Desmedt C" first="Christine" last="Desmedt">Christine Desmedt</name><affiliation><nlm:aff id="A15">Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Université Libre de Bruxelles, Brussels, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Sotiriou, Christos" sort="Sotiriou, Christos" uniqKey="Sotiriou C" first="Christos" last="Sotiriou">Christos Sotiriou</name><affiliation><nlm:aff id="A15">Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Université Libre de Bruxelles, Brussels, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Aparicio, Sam" sort="Aparicio, Sam" uniqKey="Aparicio S" first="Sam" last="Aparicio">Sam Aparicio</name><affiliation><nlm:aff id="A16">British Columbia Cancer Agency, Vancouver, Canada.</nlm:aff></affiliation></author><author><name sortKey="Foekens, John A" sort="Foekens, John A" uniqKey="Foekens J" first="John A." last="Foekens">John A. Foekens</name><affiliation><nlm:aff id="A17">Department of Medical Oncology, Erasmus Medical Center Cancer Institute, Erasmus University Medical Center, Rotterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Eyfjord, J Runn Erla" sort="Eyfjord, J Runn Erla" uniqKey="Eyfjord J" first="J Runn Erla" last="Eyfjörd">J Runn Erla Eyfjörd</name><affiliation><nlm:aff id="A18">Cancer Research Laboratory, University of Iceland, Reykjavik, Iceland.</nlm:aff></affiliation></author><author><name sortKey="Lakhani, Sunil R" sort="Lakhani, Sunil R" uniqKey="Lakhani S" first="Sunil R." last="Lakhani">Sunil R. Lakhani</name><affiliation><nlm:aff id="A19">School of Medicine, University of Queensland, Brisbane, Australia.</nlm:aff></affiliation><affiliation><nlm:aff id="A20">Pathology Queensland, Royal Brisbane and Women’s Hospital, Brisbane, Australia.</nlm:aff></affiliation><affiliation><nlm:aff id="A21">UQ Centre for Clinical Research, University of Queensland, Brisbane, Australia.</nlm:aff></affiliation></author><author><name sortKey="Thomas, Gilles" sort="Thomas, Gilles" uniqKey="Thomas G" first="Gilles" last="Thomas">Gilles Thomas</name><affiliation><nlm:aff id="A22">Université Lyon 1, Institut National du Cancer (INCa)–Synergie, Lyon, France.</nlm:aff></affiliation></author><author><name sortKey="Myklebost, Ola" sort="Myklebost, Ola" uniqKey="Myklebost O" first="Ola" last="Myklebost">Ola Myklebost</name><affiliation><nlm:aff id="A23">Institute for Cancer Research, Oslo University Hospital, Oslo, Norway.</nlm:aff></affiliation></author><author><name sortKey="Span, Paul N" sort="Span, Paul N" uniqKey="Span P" first="Paul N." last="Span">Paul N. Span</name><affiliation><nlm:aff id="A24">Department of Radiation Oncology and Department of Laboratory Medicine, Radboud University Medical Center, Nijmegen, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="B Rresen Dale, Anne Lise" sort="B Rresen Dale, Anne Lise" uniqKey="B Rresen Dale A" first="Anne-Lise" last="B Rresen-Dale">Anne-Lise B Rresen-Dale</name><affiliation><nlm:aff id="A23">Institute for Cancer Research, Oslo University Hospital, Oslo, Norway.</nlm:aff></affiliation></author><author><name sortKey="Richardson, Andrea L" sort="Richardson, Andrea L" uniqKey="Richardson A" first="Andrea L." last="Richardson">Andrea L. Richardson</name><affiliation><nlm:aff id="A25">Dana-Farber Cancer Institute, Boston, MA, USA.</nlm:aff></affiliation></author><author><name sortKey="Van De Vijver, Marc" sort="Van De Vijver, Marc" uniqKey="Van De Vijver M" first="Marc" last="Van De Vijver">Marc Van De Vijver</name><affiliation><nlm:aff id="A26">Department of Pathology, Academic Medical Center, Meibergdreef 9, 1105 AZ Amsterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Vincent Salomon, Anne" sort="Vincent Salomon, Anne" uniqKey="Vincent Salomon A" first="Anne" last="Vincent-Salomon">Anne Vincent-Salomon</name><affiliation><nlm:aff id="A27">Institut Bergonié, 229 cours de l’Argone, 33076 Bordeaux, France.</nlm:aff></affiliation><affiliation><nlm:aff id="A28">Institut Curie, Department of Tumor Biology, 26 rue d’Ulm, 75248 Paris cédex 05, France.</nlm:aff></affiliation></author><author><name sortKey="Van Den Eynden, Gert G" sort="Van Den Eynden, Gert G" uniqKey="Van Den Eynden G" first="Gert G." last="Van Den Eynden">Gert G. Van Den Eynden</name><affiliation><nlm:aff id="A29">Translational Cancer Research Unit and Department of Pathology, GZA Hospitals, Antwerp, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Flanagan, Adrienne M" sort="Flanagan, Adrienne M" uniqKey="Flanagan A" first="Adrienne M." last="Flanagan">Adrienne M. Flanagan</name><affiliation><nlm:aff id="A30">Royal National Orthopaedic Hospital, Middlesex, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A31">UCL Cancer Institute, University College London, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Futreal, P Andrew" sort="Futreal, P Andrew" uniqKey="Futreal P" first="P. Andrew" last="Futreal">P. Andrew Futreal</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A32">MD Anderson Cancer Center, Houston, TX, USA.</nlm:aff></affiliation></author><author><name sortKey="Janes, Sam M" sort="Janes, Sam M" uniqKey="Janes S" first="Sam M." last="Janes">Sam M. Janes</name><affiliation><nlm:aff id="A3">Lungs for Living Research Centre, Rayne Institute, University College London (UCL), London, UK.</nlm:aff></affiliation></author><author><name sortKey="Bova, G Steven" sort="Bova, G Steven" uniqKey="Bova G" first="G. Steven" last="Bova">G. Steven Bova</name><affiliation><nlm:aff id="A12">Institute of Biosciences and Medical Technology–BioMediTech, University of Tampere and Tampere University Hospital, Tampere, Finland.</nlm:aff></affiliation></author><author><name sortKey="Stratton, Michael R" sort="Stratton, Michael R" uniqKey="Stratton M" first="Michael R." last="Stratton">Michael R. Stratton</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Mcdermott, Ultan" sort="Mcdermott, Ultan" uniqKey="Mcdermott U" first="Ultan" last="Mcdermott">Ultan Mcdermott</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Campbell, Peter J" sort="Campbell, Peter J" uniqKey="Campbell P" first="Peter J." last="Campbell">Peter J. Campbell</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A33">Department of Haematology, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25082706</idno><idno type="pmc">4380235</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4380235</idno><idno type="RBID">PMC:4380235</idno><idno type="doi">10.1126/science.1251343</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">001D20</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">001D20</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes</title><author><name sortKey="Tubio, Jose M C" sort="Tubio, Jose M C" uniqKey="Tubio J" first="Jose M. C." last="Tubio">Jose M. C. Tubio</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Li, Yilong" sort="Li, Yilong" uniqKey="Li Y" first="Yilong" last="Li">Yilong Li</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Ju, Young Seok" sort="Ju, Young Seok" uniqKey="Ju Y" first="Young Seok" last="Ju">Young Seok Ju</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Martincorena, Inigo" sort="Martincorena, Inigo" uniqKey="Martincorena I" first="Inigo" last="Martincorena">Inigo Martincorena</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Cooke, Susanna L" sort="Cooke, Susanna L" uniqKey="Cooke S" first="Susanna L." last="Cooke">Susanna L. Cooke</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Tojo, Marta" sort="Tojo, Marta" uniqKey="Tojo M" first="Marta" last="Tojo">Marta Tojo</name><affiliation><nlm:aff id="A2">Department of Physiology, School of Medicine–Center for Resesarch in Molecular Medicine and Chronic Diseases, Instituto de Investigaciones Sanitarias, University of Santiago de Compostela, Spain.</nlm:aff></affiliation></author><author><name sortKey="Gundem, Gunes" sort="Gundem, Gunes" uniqKey="Gundem G" first="Gunes" last="Gundem">Gunes Gundem</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Pipinikas, Christodoulos P" sort="Pipinikas, Christodoulos P" uniqKey="Pipinikas C" first="Christodoulos P." last="Pipinikas">Christodoulos P. Pipinikas</name><affiliation><nlm:aff id="A3">Lungs for Living Research Centre, Rayne Institute, University College London (UCL), London, UK.</nlm:aff></affiliation></author><author><name sortKey="Zamora, Jorge" sort="Zamora, Jorge" uniqKey="Zamora J" first="Jorge" last="Zamora">Jorge Zamora</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Raine, Keiran" sort="Raine, Keiran" uniqKey="Raine K" first="Keiran" last="Raine">Keiran Raine</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Menzies, Andrew" sort="Menzies, Andrew" uniqKey="Menzies A" first="Andrew" last="Menzies">Andrew Menzies</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Roman Garcia, Pablo" sort="Roman Garcia, Pablo" uniqKey="Roman Garcia P" first="Pablo" last="Roman-Garcia">Pablo Roman-Garcia</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Fullam, Anthony" sort="Fullam, Anthony" uniqKey="Fullam A" first="Anthony" last="Fullam">Anthony Fullam</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Gerstung, Moritz" sort="Gerstung, Moritz" uniqKey="Gerstung M" first="Moritz" last="Gerstung">Moritz Gerstung</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Shlien, Adam" sort="Shlien, Adam" uniqKey="Shlien A" first="Adam" last="Shlien">Adam Shlien</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Tarpey, Patrick S" sort="Tarpey, Patrick S" uniqKey="Tarpey P" first="Patrick S." last="Tarpey">Patrick S. Tarpey</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Papaemmanuil, Elli" sort="Papaemmanuil, Elli" uniqKey="Papaemmanuil E" first="Elli" last="Papaemmanuil">Elli Papaemmanuil</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Knappskog, Stian" sort="Knappskog, Stian" uniqKey="Knappskog S" first="Stian" last="Knappskog">Stian Knappskog</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A4">Department of Clinical Science, University of Bergen, Bergen, Norway.</nlm:aff></affiliation><affiliation><nlm:aff id="A5">Department of Oncology, Haukeland University Hospital, Bergen, Norway.</nlm:aff></affiliation></author><author><name sortKey="Van Loo, Peter" sort="Van Loo, Peter" uniqKey="Van Loo P" first="Peter" last="Van Loo">Peter Van Loo</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A6">Human Genome Laboratory, Department of Human Genetics, VIB and KU Leuven, Leuven, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Ramakrishna, Manasa" sort="Ramakrishna, Manasa" uniqKey="Ramakrishna M" first="Manasa" last="Ramakrishna">Manasa Ramakrishna</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Davies, Helen R" sort="Davies, Helen R" uniqKey="Davies H" first="Helen R." last="Davies">Helen R. Davies</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Marshall, John" sort="Marshall, John" uniqKey="Marshall J" first="John" last="Marshall">John Marshall</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Wedge, David C" sort="Wedge, David C" uniqKey="Wedge D" first="David C." last="Wedge">David C. Wedge</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Teague, Jon W" sort="Teague, Jon W" uniqKey="Teague J" first="Jon W." last="Teague">Jon W. Teague</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Butler, Adam P" sort="Butler, Adam P" uniqKey="Butler A" first="Adam P." last="Butler">Adam P. Butler</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Nik Zainal, Serena" sort="Nik Zainal, Serena" uniqKey="Nik Zainal S" first="Serena" last="Nik-Zainal">Serena Nik-Zainal</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Alexandrov, Ludmil" sort="Alexandrov, Ludmil" uniqKey="Alexandrov L" first="Ludmil" last="Alexandrov">Ludmil Alexandrov</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Behjati, Sam" sort="Behjati, Sam" uniqKey="Behjati S" first="Sam" last="Behjati">Sam Behjati</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Yates, Lucy R" sort="Yates, Lucy R" uniqKey="Yates L" first="Lucy R." last="Yates">Lucy R. Yates</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Bolli, Niccolo" sort="Bolli, Niccolo" uniqKey="Bolli N" first="Niccolo" last="Bolli">Niccolo Bolli</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A33">Department of Haematology, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Mudie, Laura" sort="Mudie, Laura" uniqKey="Mudie L" first="Laura" last="Mudie">Laura Mudie</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Hardy, Claire" sort="Hardy, Claire" uniqKey="Hardy C" first="Claire" last="Hardy">Claire Hardy</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Martin, Sancha" sort="Martin, Sancha" uniqKey="Martin S" first="Sancha" last="Martin">Sancha Martin</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Mclaren, Stuart" sort="Mclaren, Stuart" uniqKey="Mclaren S" first="Stuart" last="Mclaren">Stuart Mclaren</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="O Meara, Sarah" sort="O Meara, Sarah" uniqKey="O Meara S" first="Sarah" last="O'Meara">Sarah O'Meara</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Anderson, Elizabeth" sort="Anderson, Elizabeth" uniqKey="Anderson E" first="Elizabeth" last="Anderson">Elizabeth Anderson</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Maddison, Mark" sort="Maddison, Mark" uniqKey="Maddison M" first="Mark" last="Maddison">Mark Maddison</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Gamble, Stephen" sort="Gamble, Stephen" uniqKey="Gamble S" first="Stephen" last="Gamble">Stephen Gamble</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Foster, Christopher" sort="Foster, Christopher" uniqKey="Foster C" first="Christopher" last="Foster">Christopher Foster</name><affiliation><nlm:aff id="A9">University of Liverpool and HCA Pathology Laboratories, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Warren, Anne Y" sort="Warren, Anne Y" uniqKey="Warren A" first="Anne Y." last="Warren">Anne Y. Warren</name><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Whitaker, Hayley" sort="Whitaker, Hayley" uniqKey="Whitaker H" first="Hayley" last="Whitaker">Hayley Whitaker</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Brewer, Daniel" sort="Brewer, Daniel" uniqKey="Brewer D" first="Daniel" last="Brewer">Daniel Brewer</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A11">University of East Anglia, Norwich, UK.</nlm:aff></affiliation></author><author><name sortKey="Eeles, Rosalind" sort="Eeles, Rosalind" uniqKey="Eeles R" first="Rosalind" last="Eeles">Rosalind Eeles</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Cooper, Colin" sort="Cooper, Colin" uniqKey="Cooper C" first="Colin" last="Cooper">Colin Cooper</name><affiliation><nlm:aff id="A7">Institute of Cancer Research, Sutton, London, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A11">University of East Anglia, Norwich, UK.</nlm:aff></affiliation></author><author><name sortKey="Neal, David" sort="Neal, David" uniqKey="Neal D" first="David" last="Neal">David Neal</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Lynch, Andy G" sort="Lynch, Andy G" uniqKey="Lynch A" first="Andy G." last="Lynch">Andy G. Lynch</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Visakorpi, Tapio" sort="Visakorpi, Tapio" uniqKey="Visakorpi T" first="Tapio" last="Visakorpi">Tapio Visakorpi</name><affiliation><nlm:aff id="A12">Institute of Biosciences and Medical Technology–BioMediTech, University of Tampere and Tampere University Hospital, Tampere, Finland.</nlm:aff></affiliation></author><author><name sortKey="Isaacs, William B" sort="Isaacs, William B" uniqKey="Isaacs W" first="William B." last="Isaacs">William B. Isaacs</name><affiliation><nlm:aff id="A13">Johns Hopkins University, Baltimore, MD, USA.</nlm:aff></affiliation></author><author><name sortKey="Veer, Laura Van T" sort="Veer, Laura Van T" uniqKey="Veer L" first="Laura Van'T" last="Veer">Laura Van'T Veer</name><affiliation><nlm:aff id="A14">Netherlands Cancer Institute, Amsterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Caldas, Carlos" sort="Caldas, Carlos" uniqKey="Caldas C" first="Carlos" last="Caldas">Carlos Caldas</name><affiliation><nlm:aff id="A8">Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author><author><name sortKey="Desmedt, Christine" sort="Desmedt, Christine" uniqKey="Desmedt C" first="Christine" last="Desmedt">Christine Desmedt</name><affiliation><nlm:aff id="A15">Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Université Libre de Bruxelles, Brussels, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Sotiriou, Christos" sort="Sotiriou, Christos" uniqKey="Sotiriou C" first="Christos" last="Sotiriou">Christos Sotiriou</name><affiliation><nlm:aff id="A15">Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Université Libre de Bruxelles, Brussels, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Aparicio, Sam" sort="Aparicio, Sam" uniqKey="Aparicio S" first="Sam" last="Aparicio">Sam Aparicio</name><affiliation><nlm:aff id="A16">British Columbia Cancer Agency, Vancouver, Canada.</nlm:aff></affiliation></author><author><name sortKey="Foekens, John A" sort="Foekens, John A" uniqKey="Foekens J" first="John A." last="Foekens">John A. Foekens</name><affiliation><nlm:aff id="A17">Department of Medical Oncology, Erasmus Medical Center Cancer Institute, Erasmus University Medical Center, Rotterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Eyfjord, J Runn Erla" sort="Eyfjord, J Runn Erla" uniqKey="Eyfjord J" first="J Runn Erla" last="Eyfjörd">J Runn Erla Eyfjörd</name><affiliation><nlm:aff id="A18">Cancer Research Laboratory, University of Iceland, Reykjavik, Iceland.</nlm:aff></affiliation></author><author><name sortKey="Lakhani, Sunil R" sort="Lakhani, Sunil R" uniqKey="Lakhani S" first="Sunil R." last="Lakhani">Sunil R. Lakhani</name><affiliation><nlm:aff id="A19">School of Medicine, University of Queensland, Brisbane, Australia.</nlm:aff></affiliation><affiliation><nlm:aff id="A20">Pathology Queensland, Royal Brisbane and Women’s Hospital, Brisbane, Australia.</nlm:aff></affiliation><affiliation><nlm:aff id="A21">UQ Centre for Clinical Research, University of Queensland, Brisbane, Australia.</nlm:aff></affiliation></author><author><name sortKey="Thomas, Gilles" sort="Thomas, Gilles" uniqKey="Thomas G" first="Gilles" last="Thomas">Gilles Thomas</name><affiliation><nlm:aff id="A22">Université Lyon 1, Institut National du Cancer (INCa)–Synergie, Lyon, France.</nlm:aff></affiliation></author><author><name sortKey="Myklebost, Ola" sort="Myklebost, Ola" uniqKey="Myklebost O" first="Ola" last="Myklebost">Ola Myklebost</name><affiliation><nlm:aff id="A23">Institute for Cancer Research, Oslo University Hospital, Oslo, Norway.</nlm:aff></affiliation></author><author><name sortKey="Span, Paul N" sort="Span, Paul N" uniqKey="Span P" first="Paul N." last="Span">Paul N. Span</name><affiliation><nlm:aff id="A24">Department of Radiation Oncology and Department of Laboratory Medicine, Radboud University Medical Center, Nijmegen, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="B Rresen Dale, Anne Lise" sort="B Rresen Dale, Anne Lise" uniqKey="B Rresen Dale A" first="Anne-Lise" last="B Rresen-Dale">Anne-Lise B Rresen-Dale</name><affiliation><nlm:aff id="A23">Institute for Cancer Research, Oslo University Hospital, Oslo, Norway.</nlm:aff></affiliation></author><author><name sortKey="Richardson, Andrea L" sort="Richardson, Andrea L" uniqKey="Richardson A" first="Andrea L." last="Richardson">Andrea L. Richardson</name><affiliation><nlm:aff id="A25">Dana-Farber Cancer Institute, Boston, MA, USA.</nlm:aff></affiliation></author><author><name sortKey="Van De Vijver, Marc" sort="Van De Vijver, Marc" uniqKey="Van De Vijver M" first="Marc" last="Van De Vijver">Marc Van De Vijver</name><affiliation><nlm:aff id="A26">Department of Pathology, Academic Medical Center, Meibergdreef 9, 1105 AZ Amsterdam, Netherlands.</nlm:aff></affiliation></author><author><name sortKey="Vincent Salomon, Anne" sort="Vincent Salomon, Anne" uniqKey="Vincent Salomon A" first="Anne" last="Vincent-Salomon">Anne Vincent-Salomon</name><affiliation><nlm:aff id="A27">Institut Bergonié, 229 cours de l’Argone, 33076 Bordeaux, France.</nlm:aff></affiliation><affiliation><nlm:aff id="A28">Institut Curie, Department of Tumor Biology, 26 rue d’Ulm, 75248 Paris cédex 05, France.</nlm:aff></affiliation></author><author><name sortKey="Van Den Eynden, Gert G" sort="Van Den Eynden, Gert G" uniqKey="Van Den Eynden G" first="Gert G." last="Van Den Eynden">Gert G. Van Den Eynden</name><affiliation><nlm:aff id="A29">Translational Cancer Research Unit and Department of Pathology, GZA Hospitals, Antwerp, Belgium.</nlm:aff></affiliation></author><author><name sortKey="Flanagan, Adrienne M" sort="Flanagan, Adrienne M" uniqKey="Flanagan A" first="Adrienne M." last="Flanagan">Adrienne M. Flanagan</name><affiliation><nlm:aff id="A30">Royal National Orthopaedic Hospital, Middlesex, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A31">UCL Cancer Institute, University College London, London, UK.</nlm:aff></affiliation></author><author><name sortKey="Futreal, P Andrew" sort="Futreal, P Andrew" uniqKey="Futreal P" first="P. Andrew" last="Futreal">P. Andrew Futreal</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A32">MD Anderson Cancer Center, Houston, TX, USA.</nlm:aff></affiliation></author><author><name sortKey="Janes, Sam M" sort="Janes, Sam M" uniqKey="Janes S" first="Sam M." last="Janes">Sam M. Janes</name><affiliation><nlm:aff id="A3">Lungs for Living Research Centre, Rayne Institute, University College London (UCL), London, UK.</nlm:aff></affiliation></author><author><name sortKey="Bova, G Steven" sort="Bova, G Steven" uniqKey="Bova G" first="G. Steven" last="Bova">G. Steven Bova</name><affiliation><nlm:aff id="A12">Institute of Biosciences and Medical Technology–BioMediTech, University of Tampere and Tampere University Hospital, Tampere, Finland.</nlm:aff></affiliation></author><author><name sortKey="Stratton, Michael R" sort="Stratton, Michael R" uniqKey="Stratton M" first="Michael R." last="Stratton">Michael R. Stratton</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Mcdermott, Ultan" sort="Mcdermott, Ultan" uniqKey="Mcdermott U" first="Ultan" last="Mcdermott">Ultan Mcdermott</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation></author><author><name sortKey="Campbell, Peter J" sort="Campbell, Peter J" uniqKey="Campbell P" first="Peter J." last="Campbell">Peter J. Campbell</name><affiliation><nlm:aff id="A1">Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A10">Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</nlm:aff></affiliation><affiliation><nlm:aff id="A33">Department of Haematology, University of Cambridge, Cambridge, UK.</nlm:aff></affiliation></author></analytic><series><title level="j">Science (New York, N.Y.)</title><idno type="ISSN">0036-8075</idno><idno type="eISSN">1095-9203</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p id="P2">Long interspersed nuclear element–1 (L1) retrotransposons are mobile repetitive elements that are abundant in the human genome. L1 elements propagate through RNA intermediates. In the germ line, neighboring, nonrepetitive sequences are occasionally mobilized by the L1 machinery, a process called 3′ transduction. Because 3′ transductions are potentially mutagenic, we explored the extent to which they occur somatically during tumorigenesis. Studying cancer genomes from 244 patients, we found that tumors from 53% of the patients had somatic retrotranspositions, of which 24% were 3′ transductions. Fingerprinting of donor L1s revealed that a handful of source L1 elements in a tumor can spawn from tens to hundreds of 3′ transductions, which can themselves seed further retrotranspositions. The activity of individual L1 elements fluctuated during tumor evolution and correlated with L1 promoter hypomethylation. The 3′ transductions disseminated genes, exons, and regulatory elements to new locations, most often to heterochromatic regions of the genome.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<pmc-dir>properties manuscript</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-journal-id">0404511</journal-id><journal-id journal-id-type="pubmed-jr-id">7473</journal-id><journal-id journal-id-type="nlm-ta">Science</journal-id><journal-id journal-id-type="iso-abbrev">Science</journal-id><journal-title-group><journal-title>Science (New York, N.Y.)</journal-title></journal-title-group><issn pub-type="ppub">0036-8075</issn><issn pub-type="epub">1095-9203</issn></journal-meta><article-meta><article-id pub-id-type="pmid">25082706</article-id><article-id pub-id-type="pmc">4380235</article-id><article-id pub-id-type="doi">10.1126/science.1251343</article-id><article-id pub-id-type="manuscript">NIHMS662581</article-id><article-categories><subj-group subj-group-type="heading"><subject>Article</subject></subj-group></article-categories><title-group><article-title>Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Tubio</surname><given-names>Jose M. 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rid="FN1">†</xref></contrib><contrib contrib-type="author"><collab>ICGC Prostate Cancer Group</collab><xref ref-type="aff" rid="A1">1</xref><xref ref-type="aff" rid="A7">7</xref><xref ref-type="aff" rid="A8">8</xref><xref ref-type="author-notes" rid="FN1">†</xref></contrib></contrib-group><aff id="A1"><label>1</label>Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK.</aff><aff id="A2"><label>2</label>Department of Physiology, School of Medicine–Center for Resesarch in Molecular Medicine and Chronic Diseases, Instituto de Investigaciones Sanitarias, University of Santiago de Compostela, Spain.</aff><aff id="A3"><label>3</label>Lungs for Living Research Centre, Rayne Institute, University College London (UCL), London, UK.</aff><aff id="A4"><label>4</label>Department of Clinical Science, University of Bergen, Bergen, Norway.</aff><aff id="A5"><label>5</label>Department of Oncology, Haukeland University Hospital, Bergen, Norway.</aff><aff id="A6"><label>6</label>Human Genome Laboratory, Department of Human Genetics, VIB and KU Leuven, Leuven, Belgium.</aff><aff id="A7"><label>7</label>Institute of Cancer Research, Sutton, London, UK.</aff><aff id="A8"><label>8</label>Cancer Research UK (CRUK) Cambridge Institute, University of Cambridge, Cambridge, UK.</aff><aff id="A9"><label>9</label>University of Liverpool and HCA Pathology Laboratories, London, UK.</aff><aff id="A10"><label>10</label>Cambridge University Hospitals National Health Service (NHS) Foundation Trust, Cambridge, UK.</aff><aff id="A11"><label>11</label>University of East Anglia, Norwich, UK.</aff><aff id="A12"><label>12</label>Institute of Biosciences and Medical Technology–BioMediTech, University of Tampere and Tampere University Hospital, Tampere, Finland.</aff><aff id="A13"><label>13</label>Johns Hopkins University, Baltimore, MD, USA.</aff><aff id="A14"><label>14</label>Netherlands Cancer Institute, Amsterdam, Netherlands.</aff><aff id="A15"><label>15</label>Breast Cancer Translational Research Laboratory, Institut Jules Bordet, Université Libre de Bruxelles, Brussels, Belgium.</aff><aff id="A16"><label>16</label>British Columbia Cancer Agency, Vancouver, Canada.</aff><aff id="A17"><label>17</label>Department of Medical Oncology, Erasmus Medical Center Cancer Institute, Erasmus University Medical Center, Rotterdam, Netherlands.</aff><aff id="A18"><label>18</label>Cancer Research Laboratory, University of Iceland, Reykjavik, Iceland.</aff><aff id="A19"><label>19</label>School of Medicine, University of Queensland, Brisbane, Australia.</aff><aff id="A20"><label>20</label>Pathology Queensland, Royal Brisbane and Women’s Hospital, Brisbane, Australia.</aff><aff id="A21"><label>21</label>UQ Centre for Clinical Research, University of Queensland, Brisbane, Australia.</aff><aff id="A22"><label>22</label>Université Lyon 1, Institut National du Cancer (INCa)–Synergie, Lyon, France.</aff><aff id="A23"><label>23</label>Institute for Cancer Research, Oslo University Hospital, Oslo, Norway.</aff><aff id="A24"><label>24</label>Department of Radiation Oncology and Department of Laboratory Medicine, Radboud University Medical Center, Nijmegen, Netherlands.</aff><aff id="A25"><label>25</label>Dana-Farber Cancer Institute, Boston, MA, USA.</aff><aff id="A26"><label>26</label>Department of Pathology, Academic Medical Center, Meibergdreef 9, 1105 AZ Amsterdam, Netherlands.</aff><aff id="A27"><label>27</label>Institut Bergonié, 229 cours de l’Argone, 33076 Bordeaux, France.</aff><aff id="A28"><label>28</label>Institut Curie, Department of Tumor Biology, 26 rue d’Ulm, 75248 Paris cédex 05, France.</aff><aff id="A29"><label>29</label>Translational Cancer Research Unit and Department of Pathology, GZA Hospitals, Antwerp, Belgium.</aff><aff id="A30"><label>30</label>Royal National Orthopaedic Hospital, Middlesex, UK.</aff><aff id="A31"><label>31</label>UCL Cancer Institute, University College London, London, UK.</aff><aff id="A32"><label>32</label>MD Anderson Cancer Center, Houston, TX, USA.</aff><aff id="A33"><label>33</label>Department of Haematology, University of Cambridge, Cambridge, UK.</aff><author-notes><fn id="FN1"><label>†</label><p id="P1">Participants are listed in the <xref ref-type="supplementary-material" rid="SD1">supplementary materials</xref>.</p></fn><corresp id="CR1"><label>‡</label><bold>Corresponding author. <email>pc8@sanger.ac.uk</email></bold></corresp></author-notes><pub-date pub-type="nihms-submitted"><day>12</day><month>2</month><year>2015</year></pub-date><pub-date pub-type="ppub"><day>1</day><month>8</month><year>2014</year></pub-date><pub-date pub-type="pmc-release"><day>31</day><month>3</month><year>2015</year></pub-date><volume>345</volume><issue>6196</issue><fpage>1251343</fpage><lpage>1251343</lpage><pmc-comment>elocation-id from pubmed: 10.1126/science.1251343</pmc-comment>
<permissions><copyright-statement>Copyright 2014 by the American Association for the Advancement of Science; all rights reserved.</copyright-statement><copyright-year>2014</copyright-year></permissions><abstract><p id="P2">Long interspersed nuclear element–1 (L1) retrotransposons are mobile repetitive elements that are abundant in the human genome. L1 elements propagate through RNA intermediates. In the germ line, neighboring, nonrepetitive sequences are occasionally mobilized by the L1 machinery, a process called 3′ transduction. Because 3′ transductions are potentially mutagenic, we explored the extent to which they occur somatically during tumorigenesis. Studying cancer genomes from 244 patients, we found that tumors from 53% of the patients had somatic retrotranspositions, of which 24% were 3′ transductions. Fingerprinting of donor L1s revealed that a handful of source L1 elements in a tumor can spawn from tens to hundreds of 3′ transductions, which can themselves seed further retrotranspositions. The activity of individual L1 elements fluctuated during tumor evolution and correlated with L1 promoter hypomethylation. The 3′ transductions disseminated genes, exons, and regulatory elements to new locations, most often to heterochromatic regions of the genome.</p></abstract></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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