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1
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Insights into cancer biology through next-generation sequencing

Nik-Zainal, Serena

Clinical medicine (London, England), December 2014, Vol.14 Suppl 6, pp.s71-7 [Tạp chí có phản biện]

E-ISSN: 1473-4893 ; PMID: 25468925 Version:1 ; DOI: 10.7861/clinmedicine.14-6-s71

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2
Abstract 611: AID/APOBEC cytidine deaminases can mimic the phenomenon of localized hypermutation in cancer or kataegis .
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Abstract 611: AID/APOBEC cytidine deaminases can mimic the phenomenon of localized hypermutation in cancer or kataegis .

Nik-Zainal, Serena ; Taylor, Ben ; Wu, Yee Ling ; Wedge, David ; Rada, Cristina ; Stratton, Mike ; Neuberger, Michael

Cancer Research, 04/15/2013, Vol.73(8 Supplement), pp.611-611 [Tạp chí có phản biện]

ISSN: 0008-5472 ; E-ISSN: 1538-7445 ; DOI: http://dx.doi.org/10.1158/1538-7445.AM2013-611

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3
Abstract 5143: From sequencing data to mutation spectra: a high throughput analysis pipeline.
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Abstract 5143: From sequencing data to mutation spectra: a high throughput analysis pipeline.

Jones, David ; Butler, Adam P. ; Teague, Jon W. ; Raine, Keiran M. ; Menzies, Andrew ; Marshall, John ; Hinton, Jonathan ; Dronov, Serge ; Stebbings, Lucy ; Jayakumar, Alagu ; Leroy, Catherine ; Zamora, Jorge ; Ramakrishna, Manasa ; Papaemmanuil, Elli ; Davies, Helen ; Cooke, Susanna L. ; Nik-Zainal, Serena ; Mcdermott, Ultan ; Stratton, Michael R. ; Campbell, Peter

Cancer Research, 04/15/2013, Vol.73(8 Supplement), pp.5143-5143 [Tạp chí có phản biện]

ISSN: 0008-5472 ; E-ISSN: 1538-7445 ; DOI: http://dx.doi.org/10.1158/1538-7445.AM2013-5143

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4
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Association of a germline copy number polymorphism of APOBEC3A and APOBEC3B with burden of putative apobec-dependent mutations in breast cancer.(LETTERS)(Report)(Letter to the editor)

Nik-Zainal, Serena ; Wedge, David C. ; Alexandrov, Ludmil B. ; Petljak, Mia ; Butler, Adam P. ; Bolli, Niccolo ; Davies, Helen R. ; Knappskog, Stian ; Martin, Sancha ; Papaemmanuil, Elli ; Ramakrishna, Manasa ; Shlien, Adam ; Simonic, Ingrid ; Xue, Yali ; Tyler- Smith, Chris ; Campbell, Peter J. ; Stratton, Michael R.

Nature Genetics, 2014, Vol.46(5), p.487(7) [Tạp chí có phản biện]

ISSN: 1061-4036

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5
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Association of a germline copy number polymorphism of APOBEC3A and APOBEC3B with burden of putative APOBEC-dependent mutations in breast cancer

Nik-Zainal, Serena ; Wedge, David C ; Alexandrov, Ludmil B ; Petljak, Mia ; Butler, Adam P ; Bolli, Niccolo ; Davies, Helen R ; Knappskog, Stian ; Martin, Sancha ; Papaemmanuil, Elli ; Ramakrishna, Manasa ; Shlien, Adam ; Simonic, Ingrid ; Xue, Yali ; Tyler-Smith, Chris ; Campbell, Peter J ; Stratton, Michael R

Nature genetics, May 2014, Vol.46(5), pp.487-91 [Tạp chí có phản biện]

E-ISSN: 1546-1718 ; PMID: 24728294 Version:1 ; DOI: 10.1038/ng.2955

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6
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Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes

Tubio, Jose M. ; Li, Yilong ; Ju, Young Seok ; Martincorena, Inigo ; Cooke, Susanna ; Tojo, Marta ; Gundem, Gunes ; Pipinikas, Christodoulos ; Zamora, Jorge ; Raine, John ; Menzies, D. ; Roman-Garcia, Pablo ; Fullam, Anthony ; Gerstung, Moritz ; Shlien, Adam ; Tarpey, Patrick ; Papaemmanuil, Elli ; Knappskog, Stian ; Loo, Peter ; Ramakrishna, Manasa ; Davies, Helen ; Marshall, John ; Wedge, David ; Teague, Jon ; Butler, Adam ; Nik-Zainal, Serena ; Alexandrov, Ludmil ; Behjati, Sam ; Yates, Lucy ; Bolli, Niccolò ; Mudie, Laura ; Hardy, Claire ; Martin, Sandra ; McLaren, Stuart ; O'Meara, Sarah ; Anderson, Elizabeth ; Maddison, Mark ; Gamble, Stephen ; Foster, Christopher ; Warren, Anne ; Whitaker, Heather ; Brewer, Daniel ; Eeles, Rosalind ; Cooper, Colin ; Neal, David ; Lynch, Andy ; Visakorpi, Tapio ; Isaacs, William ; Veer, Laura ; Caldas, Carlos ; Desmedt, Christine ; Sotiriou, Christos ; Aparicio, Sam ; Foekens, John ; Eyfjord, J. ; Lakhani, Sunil ; Thomas, Gilles ; Myklebost, Ola ; Span, Paul ; Børresen-Dale, Anne Lise ; Richardson, Andrea ; Vijver, Marc ; Vincent-Salomon, Anne ; Eynden, Gert ; Flanagan, Adrienne ; Futreal, Andrew ; Janes, Holly ; Bova, G. Steven ; Stratton, Michael ; McDermott, Ultan ; Campbell, Peter; Department of Medical Oncology

Science, 2014, Vol.345(6196) [Tạp chí có phản biện]

ISSN: ; ISSN: 00368075

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7
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Corrigendum: distinct H3F3A and H3F3B driver mutations define chondroblastoma and giant cell tumor of bone.(CORRIGENDA)(Correction notice)

Behjati, Sam ; Tarpey, Patrick S. ; Presneau, Nadege ; Scheipl, Susanne ; Pillay, Nischalan ; Van Loo, Peter ; Wedge, David C. ; Cooke, Susanna L. ; Gundem, Gunes ; Davies, Helen ; Nik-Zainal, Serena ; Martin, Sancha ; Mclaren, Stuart ; Goodie, Victoria ; Robinson, Ben ; Butler, Adam ; Teague, Jon W. ; Halai, Dina ; Khatri, Bhavisha ; Myklebost, Ola ; Baumhoer, Daniel ; Jundt, Gernot ; Hamoudi, Rifat ; Tirabosco, Roberto ; Amary, M. Fernanda ; Futreal, P. Andrew ; Stratton, Michael R. ; Campbell, Peter J. ; Flanagan, Adrienne M.

Nature Genetics, 2014, Vol.46(3), p.316(1) [Tạp chí có phản biện]

ISSN: 1061-4036

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8
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Distinct H3F3A and H3F3B driver mutations define chondroblastoma and giant cell tumor of bone

Behjati, Sam ; Tarpey, Patrick S ; Presneau, Nadège ; Scheipl, Susanne ; Pillay, Nischalan ; Van Loo, Peter ; Wedge, David C ; Cooke, Susanna L ; Gundem, Gunes ; Davies, Helen ; Nik-Zainal, Serena ; Martin, Sancha ; Mclaren, Stuart ; Goodie, Victoria ; Robinson, Ben ; Butler, Adam ; Teague, Jon W ; Halai, Dina ; Khatri, Bhavisha ; Myklebost, Ola ; Baumhoer, Daniel ; Jundt, Gernot ; Hamoudi, Rifat ; Tirabosco, Roberto ; Amary, M Fernanda ; Futreal, P Andrew ; Stratton, Michael R ; Campbell, Peter J ; Flanagan, Adrienne M

Nature genetics, December 2013, Vol.45(12), pp.1479-82 [Tạp chí có phản biện]

E-ISSN: 1546-1718 ; PMID: 24162739 Version:1 ; DOI: 10.1038/ng.2814

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9
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Deciphering Signatures of Mutational Processes Operative in Human Cancer

Alexandrov, Ludmil b ; Nik-Zainal, Serena ; Wedge, David c ; Campbell, Peter j ; Stratton, Michael r

Cell Reports, 31 January 2013, Vol.3(1), pp.246-259 [Tạp chí có phản biện]

ISSN: 2211-1247 ; E-ISSN: 2211-1247 ; DOI: 10.1016/j.celrep.2012.12.008

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10
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Frequent mutation of the major cartilage collagen gene COL2A1 in chondrosarcoma

Tarpey, Patrick S ; Behjati, Sam ; Cooke, Susanna L ; Van Loo, Peter ; Wedge, David C ; Pillay, Nischalan ; Marshall, John ; O'Meara, Sarah ; Davies, Helen ; Nik-Zainal, Serena ; Beare, David ; Butler, Adam ; Gamble, John ; Hardy, Claire ; Hinton, Jonathon ; Jia, Ming Ming ; Jayakumar, Alagu ; Jones, David ; Latimer, Calli ; Maddison, Mark ; Martin, Sancha ; Mclaren, Stuart ; Menzies, Andrew ; Mudie, Laura ; Raine, Keiran ; Teague, Jon W ; Tubio, Jose M C ; Halai, Dina ; Tirabosco, Roberto ; Amary, Fernanda ; Campbell, Peter J ; Stratton, Michael R ; Flanagan, Adrienne M ; Futreal, P Andrew

Nature genetics, August 2013, Vol.45(8), pp.923-6 [Tạp chí có phản biện]

E-ISSN: 1546-1718 ; PMID: 23770606 Version:1 ; DOI: 10.1038/ng.2668

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11
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RAG-mediated recombination is the predominant driver of oncogenic rearrangement in ETV6-RUNX1 acute lymphoblastic leukemia

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

Nature genetics, February 2014, Vol.46(2), pp.116-25 [Tạp chí có phản biện]

E-ISSN: 1546-1718 ; PMID: 24413735 Version:1 ; DOI: 10.1038/ng.2874

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12
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Whole exome sequencing of adenoid cystic carcinoma

Stephens, Philip J ; Davies, Helen R ; Mitani, Yoshitsugu ; Van Loo, Peter ; Shlien, Adam ; Tarpey, Patrick S ; Papaemmanuil, Elli ; Cheverton, Angela ; Bignell, Graham R ; Butler, Adam P ; Gamble, John ; Gamble, Stephen ; Hardy, Claire ; Hinton, Jonathan ; Jia, Mingming ; Jayakumar, Alagu ; Jones, David ; Latimer, Calli ; Mclaren, Stuart ; Mcbride, David J ; Menzies, Andrew ; Mudie, Laura ; Maddison, Mark ; Raine, Keiran ; Nik-Zainal, Serena ; O'Meara, Sarah ; Teague, Jon W ; Varela, Ignacio ; Wedge, David C ; Whitmore, Ian ; Lippman, Scott M ; Mcdermott, Ultan ; Stratton, Michael R ; Campbell, Peter J ; El-Naggar, Adel K ; Futreal, P Andrew

The Journal of clinical investigation, July 2013, Vol.123(7), pp.2965-8 [Tạp chí có phản biện]

E-ISSN: 1558-8238 ; PMID: 23778141 Version:1 ; DOI: 10.1172/JCI67201

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13
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Signatures of mutational processes in human cancer

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

Alexandrov, L. B., S. Nik-Zainal, D. C. Wedge, S. A. Aparicio, S. Behjati, A. V. Biankin, G. R. Bignell, et al. 2013. “Signatures of mutational processes in human cancer.” Nature 500 (7463): 415-421. doi:10.1038/nature12477. http://dx.doi.org/10.1038/nature12477. [Tạp chí có phản biện]

ISSN: 0028-0836 ; DOI: 10.1038/nature12477

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14
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DNA deaminases induce break-associated mutation showers with implication of APOBEC3B and 3A in breast cancer kataegis

Taylor, Benjamin Jm ; Nik-Zainal, Serena ; Wu, Yee Ling ; Stebbings, Lucy A ; Raine, Keiran ; Campbell, Peter J ; Rada, Cristina ; Stratton, Michael R ; Neuberger, Michael S

eLife, 16 April 2013, Vol.2, pp.e00534 [Tạp chí có phản biện]

ISSN: 2050-084X ; PMID: 23599896 Version:1 ; DOI: 10.7554/eLife.00534

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15
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The genetic heterogeneity and mutational burden of engineered melanomas in zebrafish models

Yen, Jennifer ; White, Richard M ; Wedge, David C ; Van Loo, Peter ; De Ridder, Jeroen ; Capper, Amy ; Richardson, Jennifer ; Jones, David ; Raine, Keiran ; Watson, Ian R ; Wu, Chang-Jiun ; Cheng, Jiqiu ; Martincorena, Iñigo ; Nik-Zainal, Serena ; Mudie, Laura ; Moreau, Yves ; Marshall, John ; Ramakrishna, Manasa ; Tarpey, Patrick ; Shlien, Adam ; Whitmore, Ian ; Gamble, Steve ; Latimer, Calli ; Langdon, Erin ; Kaufman, Charles ; Dovey, Mike ; Taylor, Alison ; Menzies, Andy ; Mclaren, Stuart ; O’meara, Sarah ; Butler, Adam ; Teague, Jon ; Lister, James ; Chin, Lynda ; Campbell, Peter ; Adams, David J ; Zon, Leonard I ; Patton, E Elizabeth ; Stemple, Derek L ; Futreal, P Andy

Yen, J., R. M. White, D. C. Wedge, P. Van Loo, J. de Ridder, A. Capper, J. Richardson, et al. 2013. “The genetic heterogeneity and mutational burden of engineered melanomas in zebrafish models.” Genome Biology 14 (10): R113. doi:10.1186/gb-2013-14-10-r113. http://dx.doi.org/10.1186/gb-2013-14-10-r113. [Tạp chí có phản biện]

ISSN: 1465-6906 ; DOI: 10.1186/gb-2013-14-10-r113

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16
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Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

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

Bolli, N., H. Avet-Loiseau, D. C. Wedge, P. Van Loo, L. B. Alexandrov, I. Martincorena, K. J. Dawson, et al. 2014. “Heterogeneity of genomic evolution and mutational profiles in multiple myeloma.” Nature Communications 5 (1): 2997. doi:10.1038/ncomms3997. http://dx.doi.org/10.1038/ncomms3997. [Tạp chí có phản biện]

ISSN: 2041-1723 ; DOI: 10.1038/ncomms3997

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17
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Processed pseudogenes acquired somatically during cancer development

Cooke, Susanna L ; Shlien, Adam ; Marshall, John ; Pipinikas, Christodoulos P ; Martincorena, Inigo ; Tubio, Jose M C ; Li, Yilong ; Menzies, Andrew ; Mudie, Laura ; Ramakrishna, Manasa ; Yates, Lucy ; Davies, Helen ; Bolli, Niccolo ; Bignell, Graham R ; Tarpey, Patrick S ; Behjati, Sam ; Nik-Zainal, Serena ; Papaemmanuil, Elli ; Teixeira, Vitor H ; Raine, Keiran ; O'Meara, Sarah ; Dodoran, Maryam S ; Teague, Jon W ; Butler, Adam P ; Iacobuzio-Donahue, Christine ; Santarius, Thomas ; Grundy, Richard G ; Malkin, David ; Greaves, Mel ; Munshi, Nikhil ; Flanagan, Adrienne M ; Bowtell, David ; Martin, Sancha ; Larsimont, Denis ; Reis-Filho, Jorge S ; Boussioutas, Alex ; Taylor, Jack A ; Hayes, Neil D ; Janes, Sam M ; Futreal, P Andrew ; Stratton, Michael R ; Mcdermott, Ultan ; Campbell, Peter J

Nature communications, 09 April 2014, Vol.5, pp.3644 [Tạp chí có phản biện]

E-ISSN: 2041-1723 ; PMID: 24714652 Version:1 ; DOI: 10.1038/ncomms4644

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18
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Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer

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

eLife, 01 October 2014, Vol.3 [Tạp chí có phản biện]

E-ISSN: 2050-084X ; PMID: 25271376 Version:1 ; DOI: 10.7554/eLife.02935

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