VAGrENT: Variation Annotation Generator

di Menzies, Andy, Teague, Jon W., Butler, Adam P., Davies, Helen, Tarpey, Patrick, Nik-Zainal, Serena, Campbell, Peter J.
Pubblicato in Curr Protoc Bioinformatics (2015)

cgpCaVEManWrapper: Simple Execution of CaVEMan in Order to Detect Somatic Single Nucleotide Variants in NGS Data

di Jones, David, Raine, Keiran M., Davies, Helen, Tarpey, Patrick S., Butler, Adam P., Teague, Jon W., Nik-Zainal, Serena, Campbell, Peter J.
Pubblicato in Curr Protoc Bioinformatics (2016)

cgpPindel: Identifying Somatically Acquired Insertion and Deletion Events from Paired End Sequencing

di Raine, Keiran M., Hinton, Jonathan, Butler, Adam P., Teague, Jon W., Davies, Helen, Tarpey, Patrick, Nik-Zainal, Serena, Campbell, Peter J.
Pubblicato in Curr Protoc Bioinformatics (2015)

ascatNgs: Identifying Somatically Acquired Copy-Number Alterations from Whole-Genome Sequencing Data

di Raine, Keiran M., Van Loo, Peter, Wedge, David C., Jones, David, Menzies, Andrew, Butler, Adam P., Teague, Jon W., Tarpey, Patrick, Nik-Zainal, Serena, Campbell, Peter J.
Pubblicato in Curr Protoc Bioinformatics (2016)

RNAmut: robust identification of somatic mutations in acute myeloid leukemia using RNA-sequencing

di Gu, Muxin, Zwiebel, Maximillian, Ong, Swee Hoe, Boughton, Nick, Nomdedeu, Josep, Basheer, Faisal, Nannya, Yasuhito, Quiros, Pedro M., Ogawa, Seishi, Cazzola, Mario, Rad, Roland, Butler, Adam P., Vijayabaskar, MS, Vassiliou, George S.
Pubblicato in Haematologica (2020)

Unsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting

di Iorio, Francesco, Behan, Fiona M., Gonçalves, Emanuel, Bhosle, Shriram G., Chen, Elisabeth, Shepherd, Rebecca, Beaver, Charlotte, Ansari, Rizwan, Pooley, Rachel, Wilkinson, Piers, Harper, Sarah, Butler, Adam P., Stronach, Euan A., Saez-Rodriguez, Julio, Yusa, Kosuke, Garnett, Mathew J.
Pubblicato in BMC Genomics (2018)

Data mining using the Catalogue of Somatic Mutations in Cancer BioMart

di Shepherd, Rebecca, Forbes, Simon A., Beare, David, Bamford, S., Cole, Charlotte G., Ward, Sari, Bindal, Nidhi, Gunasekaran, Prasad, Jia, Mingming, Kok, Chai Yin, Leung, Kenric, Menzies, Andrew, Butler, Adam P., Teague, Jon W., Campbell, Peter J., Stratton, Michael R., Futreal, P. Andrew
Pubblicazione 2011

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

di 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.
Pubblicazione 2014

Polygenic in vivo validation of cancer mutations using transposons

di Chew, Su Kit, Lu, Dong, Campos, Lia S, Scott, Kenneth L, Saci, Abdel, Wang, Juexuan, Collinson, Adam, Raine, Keiran, Hinton, Jonathan, Teague, Jon W, Jones, David, Menzies, Andrew, Butler, Adam P, Gamble, John, O’Meara, Sarah, McLaren, Stuart, Chin, Lynda, Liu, Pentao, Futreal, P Andrew
Pubblicazione 2014

Architectures of somatic genomic rearrangement in human cancer amplicons at sequence-level resolution

di Bignell, Graham R., Santarius, Thomas, Pole, Jessica C.M., Butler, Adam P., Perry, Janet, Pleasance, Erin, Greenman, Chris, Menzies, Andrew, Taylor, Sheila, Edkins, Sarah, Campbell, Peter, Quail, Michael, Plumb, Bob, Matthews, Lucy, McLay, Kirsten, Edwards, Paul A.W., Rogers, Jane, Wooster, Richard, Futreal, P. Andrew, Stratton, Michael R.
Pubblicazione 2007

Signatures of mutation and selection in the cancer genome

di Bignell, Graham R., Greenman, Chris D., Davies, Helen, Butler, Adam P., Edkins, Sarah, Andrews, Jenny M., Buck, Gemma, Chen, Lina, Beare, David, Latimer, Calli, Widaa, Sara, Hinton, Jonathon, Fahey, Ciara, Fu, Beiyuan, Swamy, Sajani, Dalgliesh, Gillian L., Teh, Bin T., Deloukas, Panos, Yang, Fengtang, Campbell, Peter J., Futreal, P. Andrew, Stratton, Michael R.
Pubblicazione 2010

Genomic Classification and Prognosis in Acute Myeloid Leukemia

di Papaemmanuil, Elli, Gerstung, Moritz, Bullinger, Lars, Gaidzik, Verena I., Paschka, Peter, Roberts, Nicola D., Potter, Nicola E., Heuser, Michael, Thol, Felicitas, Bolli, Niccolo, Gundem, Gunes, Van Loo, Peter, Martincorena, Inigo, Ganly, Peter, Mudie, Laura, McLaren, Stuart, O’Meara, Sarah, Raine, Keiran, Jones, David R., Teague, Jon W., Butler, Adam P., Greaves, Mel F., Ganser, Arnold, Döhner, Konstanze, Schlenk, Richard F., Döhner, Hartmut, Campbell, Peter J.
Pubblicato in N Engl J Med (2016)

The patterns and dynamics of genomic instability in metastatic pancreatic cancer

di Campbell, Peter J, Yachida, Shinichi, Mudie, Laura J, Stephens, Philip J, Pleasance, Erin D, Stebbings, Lucy A, Morsberger, Laura A, Latimer, Calli, McLaren, Stuart, Lin, Meng-Lay, McBride, David J, Varela, Ignacio, Nik-Zainal, Serena A, Leroy, Catherine, Jia, Mingming, Menzies, Andrew, Butler, Adam P, Teague, Jon W, Griffin, Constance A, Burton, John, Swerdlow, Harold, Quail, Michael A, Stratton, Michael R, Iacobuzio-Donahue, Christine, Futreal, P Andrew
Pubblicazione 2010

Disease heterogeneity and personalized prognosis in myeloproliferative neoplasms

di Grinfeld, Jacob, Nangalia, Jyoti, Baxter, E Joanna, Wedge, David C, Angelopoulos, Nicos, Cantrill, Robert, Godfrey, Anna L, Papaemmanuil, Elli, Gundem, Gunes, MacLean, Cathy, Cook, Julia, Mudie, Laura, O’Meara, Sarah, Teague, Jon W, Butler, Adam P, Massie, Charlie E, Williams, Nicholas, Nice, Francesca L, Andersen, Christen L, Hasselbalch, Hans C, Guglielmelli, Paola, McMullin, Mary Frances, Vannucchi, Alessandro M, Harrison, Claire N, Gerstung, Moritz, Green, Anthony R, Campbell, Peter J
Pubblicato in N Engl J Med (2018)

The driver landscape of sporadic chordoma

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

Mutational signatures of ionizing radiation in second malignancies

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

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

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

Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development

di Stephens, Philip J., Greenman, Chris D., Fu, Beiyuan, Yang, Fengtang, Bignell, Graham R., Mudie, Laura J., Pleasance, Erin D., Lau, King Wai, Beare, David, Stebbings, Lucy A., McLaren, Stuart, Lin, Meng-Lay, McBride, David J., Varela, Ignacio, Nik-Zainal, Serena, Leroy, Catherine, Jia, Mingming, Menzies, Andrew, Butler, Adam P., Teague, Jon W., Quail, Michael A., Burton, John, Swerdlow, Harold, Carter, Nigel P., Morsberger, Laura A., Iacobuzio-Donahue, Christine, Follows, George A., Green, Anthony R., Flanagan, Adrienne M., Stratton, Michael R., Futreal, P. Andrew, Campbell, Peter J.
Pubblicazione 2011

Clinical and biological implications of driver mutations in myelodysplastic syndromes

di Papaemmanuil, Elli, Gerstung, Moritz, Malcovati, Luca, Tauro, Sudhir, Gundem, Gunes, Van Loo, Peter, Yoon, Chris J., Ellis, Peter, Wedge, David C., Pellagatti, Andrea, Shlien, Adam, Groves, Michael John, Forbes, Simon A., Raine, Keiran, Hinton, Jon, Mudie, Laura J., McLaren, Stuart, Hardy, Claire, Latimer, Calli, Della Porta, Matteo G., O’Meara, Sarah, Ambaglio, Ilaria, Galli, Anna, Butler, Adam P., Walldin, Gunilla, Teague, Jon W., Quek, Lynn, Sternberg, Alex, Gambacorti-Passerini, Carlo, Cross, Nicholas C. P., Green, Anthony R., Boultwood, Jacqueline, Vyas, Paresh, Hellstrom-Lindberg, Eva, Bowen, David, Cazzola, Mario, Stratton, Michael R., Campbell, Peter J.
Pubblicazione 2013

Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

di 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.
Pubblicazione 2014