VAGrENT: Variation Annotation Generator

Por Menzies, Andy, Teague, Jon W., Butler, Adam P., Davies, Helen, Tarpey, Patrick, Nik-Zainal, Serena, Campbell, Peter J.
Publicado no Curr Protoc Bioinformatics (2015)

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

Por Jones, David, Raine, Keiran M., Davies, Helen, Tarpey, Patrick S., Butler, Adam P., Teague, Jon W., Nik-Zainal, Serena, Campbell, Peter J.
Publicado no Curr Protoc Bioinformatics (2016)

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

Por Raine, Keiran M., Hinton, Jonathan, Butler, Adam P., Teague, Jon W., Davies, Helen, Tarpey, Patrick, Nik-Zainal, Serena, Campbell, Peter J.
Publicado no Curr Protoc Bioinformatics (2015)

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

Por 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.
Publicado no Curr Protoc Bioinformatics (2016)

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

Por 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.
Publicado no Haematologica (2020)

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

Por 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.
Publicado no BMC Genomics (2018)

Data mining using the Catalogue of Somatic Mutations in Cancer BioMart

Por 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
Publicado em 2011

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

Por 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.
Publicado em 2014

Polygenic in vivo validation of cancer mutations using transposons

Por 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
Publicado em 2014

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

Por 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.
Publicado em 2007

Signatures of mutation and selection in the cancer genome

Por 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.
Publicado em 2010

Genomic Classification and Prognosis in Acute Myeloid Leukemia

Por 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.
Publicado no N Engl J Med (2016)

The patterns and dynamics of genomic instability in metastatic pancreatic cancer

Por 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
Publicado em 2010

Disease heterogeneity and personalized prognosis in myeloproliferative neoplasms

Por 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
Publicado no N Engl J Med (2018)

The driver landscape of sporadic chordoma

Por 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.
Publicado no Nat Commun (2017)

Mutational signatures of ionizing radiation in second malignancies

Por 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.
Publicado no Nat Commun (2016)

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

Por 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.
Publicado no Nat Commun (2017)

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

Por 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.
Publicado em 2011

Clinical and biological implications of driver mutations in myelodysplastic syndromes

Por 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.
Publicado em 2013

Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

Por 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.
Publicado em 2014