PeSV-Fisher: Identification of Somatic and Non-Somatic Structural Variants Using Next Generation Sequencing Data

por Escaramís, Geòrgia, Tornador, Cristian, Bassaganyas, Laia, Rabionet, Raquel, Tubio, Jose M. C., Martínez-Fundichely, Alexander, Cáceres, Mario, Gut, Marta, Ossowski, Stephan, Estivill, Xavier
Publicado 2013

Correction: PeSV-Fisher: Identification of Somatic and Non-Somatic Structural Variants Using Next Generation Sequencing Data

por Escaramís, Geòrgia, Tornador, Cristian, Bassaganyas, Laia, Rabionet, Raquel, Tubio, Jose M. C., Martínez-Fundichely, Alexander, Cáceres, Mario, Gut, Marta, Ossowski, Stephan, Estivill, Xavier
Publicado 2013

Characterisation of the genomic landscape of CRLF2‐rearranged acute lymphoblastic leukemia

por Russell, Lisa J., Jones, Lisa, Enshaei, Amir, Tonin, Stefano, Ryan, Sarra L., Eswaran, Jeyanthy, Nakjang, Sirintra, Papaemmanuil, Elli, Tubio, Jose M. C., Fielding, Adele K., Vora, Ajay, Campbell, Peter J., Moorman, Anthony V., Harrison, Christine J.
Publicado en Genes Chromosomes Cancer (2017)

A second transmissible cancer in Tasmanian devils

por Pye, Ruth J., Pemberton, David, Tovar, Cesar, Tubio, Jose M. C., Dun, Karen A., Fox, Samantha, Darby, Jocelyn, Hayes, Dane, Knowles, Graeme W., Kreiss, Alexandre, Siddle, Hannah V. T., Swift, Kate, Lyons, A. Bruce, Murchison, Elizabeth P., Woods, Gregory M.
Publicado en Proc Natl Acad Sci U S A (2016)

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

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

TRANSMISSIBLE DOG CANCER GENOME REVEALS THE ORIGIN AND HISTORY OF AN ANCIENT CELL LINEAGE

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

VAV2 signaling promotes regenerative proliferation in both cutaneous and head and neck squamous cell carcinoma

por Lorenzo-Martín, L. Francisco, Fernández-Parejo, Natalia, Menacho-Márquez, Mauricio, Rodríguez-Fdez, Sonia, Robles-Valero, Javier, Zumalave, Sonia, Fabbiano, Salvatore, Pascual, Gloria, García-Pedrero, Juana M., Abad, Antonio, García-Macías, María C., González, Nazareno, Lorenzano-Menna, Pablo, Pavón, Miguel A., González-Sarmiento, Rogelio, Segrelles, Carmen, Paramio, Jesús M., Tubío, José M. C., Rodrigo, Juan P., Benitah, Salvador A., Cuadrado, Myriam, Bustelo, Xosé R.
Publicado en Nat Commun (2020)

Genomic landscape and chronological reconstruction of driver events in multiple myeloma

por Maura, Francesco, Bolli, Niccoló, Angelopoulos, Nicos, Dawson, Kevin J., Leongamornlert, Daniel, Martincorena, Inigo, Mitchell, Thomas J., Fullam, Anthony, Gonzalez, Santiago, Szalat, Raphael, Abascal, Federico, Rodriguez-Martin, Bernardo, Samur, Mehmet Kemal, Glodzik, Dominik, Roncador, Marco, Fulciniti, Mariateresa, Tai, Yu Tzu, Minvielle, Stephane, Magrangeas, Florence, Moreau, Philippe, Corradini, Paolo, Anderson, Kenneth C., Tubio, Jose M. C., Wedge, David C., Gerstung, Moritz, Avet-Loiseau, Hervé, Munshi, Nikhil, Campbell, Peter J.
Publicado en Nat Commun (2019)

The Origins and Vulnerabilities of Two Transmissible Cancers in Tasmanian Devils

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

The Evolutionary History of Lethal Metastatic Prostate Cancer

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

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 2014

Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi

por Jiang, Xiaofang, Peery, Ashley, Hall, A Brantley, Sharma, Atashi, Chen, Xiao-Guang, Waterhouse, Robert M, Komissarov, Aleksey, Riehle, Michelle M, Shouche, Yogesh, Sharakhova, Maria V, Lawson, Dan, Pakpour, Nazzy, Arensburger, Peter, Davidson, Victoria L M, Eiglmeier, Karin, Emrich, Scott, George, Phillip, Kennedy, Ryan C, Mane, Shrinivasrao P, Maslen, Gareth, Oringanje, Chioma, Qi, Yumin, Settlage, Robert, Tojo, Marta, Tubio, Jose M C, Unger, Maria F, Wang, Bo, Vernick, Kenneth D, Ribeiro, Jose M C, James, Anthony A, Michel, Kristin, Riehle, Michael A, Luckhart, Shirley, Sharakhov, Igor V, Tu, Zhijian
Publicado 2014

An integrated genomic analysis of anaplastic meningioma identifies prognostic molecular signatures

por Collord, Grace, Tarpey, Patrick, Kurbatova, Natalja, Martincorena, Inigo, Moran, Sebastian, Castro, Manuel, Nagy, Tibor, Bignell, Graham, Maura, Francesco, Young, Matthew D., Berna, Jorge, Tubio, Jose M. C., McMurran, Chris E., Young, Adam M. H., Sanders, Mathijs, Noorani, Imran, Price, Stephen J., Watts, Colin, Leipnitz, Elke, Kirsch, Matthias, Schackert, Gabriele, Pearson, Danita, Devadass, Abel, Ram, Zvi, Collins, V. Peter, Allinson, Kieren, Jenkinson, Michael D., Zakaria, Rasheed, Syed, Khaja, Hanemann, C. Oliver, Dunn, Jemma, McDermott, Michael W., Kirollos, Ramez W., Vassiliou, George S., Esteller, Manel, Behjati, Sam, Brazma, Alvis, Santarius, Thomas, McDermott, Ultan
Publicado en Sci Rep (2018)

Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis

por Petljak, Mia, Alexandrov, Ludmil B., Brammeld, Jonathan S., Price, Stacey, Wedge, David C., Grossmann, Sebastian, Dawson, Kevin J., Ju, Young Seok, Iorio, Francesco, Tubio, Jose M.C., Koh, Ching Chiek, Georgakopoulos-Soares, Ilias, Rodríguez–Martín, Bernardo, Otlu, Burçak, O’Meara, Sarah, Butler, Adam P., Menzies, Andrew, Bhosle, Shriram G., Raine, Keiran, Jones, David R., Teague, Jon W., Beal, Kathryn, Latimer, Calli, O’Neill, Laura, Zamora, Jorge, Anderson, Elizabeth, Patel, Nikita, Maddison, Mark, Ng, Bee Ling, Graham, Jennifer, Garnett, Mathew J., McDermott, Ultan, Nik-Zainal, Serena, Campbell, Peter J., Stratton, Michael R.
Publicado en Cell (2019)

Processed pseudogenes acquired somatically during cancer development

por 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.
Publicado 2014

Frequent somatic transfer of mitochondrial DNA into the nuclear genome of human cancer cells

por Ju, Young Seok, Tubio, Jose M.C., Mifsud, William, Fu, Beiyuan, Davies, Helen R., Ramakrishna, Manasa, Li, Yilong, Yates, Lucy, Gundem, Gunes, Tarpey, Patrick S., Behjati, Sam, Papaemmanuil, Elli, Martin, Sancha, Fullam, Anthony, Gerstung, Moritz, Nangalia, Jyoti, Green, Anthony R., Caldas, Carlos, Borg, Åke, Tutt, Andrew, Lee, Ming Ta Michael, van't Veer, Laura J., Tan, Benita K.T., Aparicio, Samuel, Span, Paul N., Martens, John W.M., Knappskog, Stian, Vincent-Salomon, Anne, Børresen-Dale, Anne-Lise, Eyfjörd, Jórunn Erla, Flanagan, Adrienne M., Foster, Christopher, Neal, David E., Cooper, Colin, Eeles, Rosalind, Lakhani, Sunil R., Desmedt, Christine, Thomas, Gilles, Richardson, Andrea L., Purdie, Colin A., Thompson, Alastair M., McDermott, Ultan, Yang, Fengtang, Nik-Zainal, Serena, Campbell, Peter J., Stratton, Michael R.
Publicado en Genome Res (2015)

Corrigendum: Frequent somatic transfer of mitochondrial DNA into the nuclear genome of human cancer cells

por Ju, Young Seok, Tubio, Jose M.C., Mifsud, William, Fu, Beiyuan, Davies, Helen R., Ramakrishna, Manasa, Li, Yilong, Yates, Lucy, Gundem, Gunes, Tarpey, Patrick S., Behjati, Sam, Papaemmanuil, Elli, Martin, Sancha, Fullam, Anthony, Gerstung, Moritz, Nangalia, Jyoti, Green, Anthony R., Caldas, Carlos, Borg, Åke, Tutt, Andrew, Lee, Ming Ta Michael, van't Veer, Laura J., Tan, Benita K.T., Aparicio, Samuel, Span, Paul N., Martens, John W.M., Knappskog, Stian, Vincent-Salomon, Anne, Børresen-Dale, Anne-Lise, Eyfjörd, Jórunn Erla, Myklebost, Ola, Flanagan, Adrienne M., Foster, Christopher, Neal, David E., Cooper, Colin, Eeles, Rosalind, Bova, G. Steven, Lakhani, Sunil R., Desmedt, Christine, Thomas, Gilles, Richardson, Andrea L., Purdie, Colin A., Thompson, Alastair M., McDermott, Ultan, Yang, Fengtang, Nik-Zainal, Serena, Campbell, Peter J., Stratton, Michael R.
Publicado en Genome Res (2016)

Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

por Rodriguez-Martin, Bernardo, Alvarez, Eva G., Baez-Ortega, Adrian, Zamora, Jorge, Supek, Fran, Demeulemeester, Jonas, Santamarina, Martin, Ju, Young Seok, Temes, Javier, Garcia-Souto, Daniel, Detering, Harald, Li, Yilong, Rodriguez-Castro, Jorge, Dueso-Barroso, Ana, Bruzos, Alicia L., Dentro, Stefan C., Blanco, Miguel G., Contino, Gianmarco, Ardeljan, Daniel, Tojo, Marta, Roberts, Nicola D., Zumalave, Sonia, Edwards, Paul A., Weischenfeldt, Joachim, Puiggròs, Montserrat, Chong, Zechen, Chen, Ken, Lee, Eunjung Alice, Wala, Jeremiah A., Raine, Keiran M., Butler, Adam, Waszak, Sebastian M., Navarro, Fabio C. P., Schumacher, Steven E., Monlong, Jean, Maura, Francesco, Bolli, Niccolo, Bourque, Guillaume, Gerstein, Mark, Park, Peter J., Wedge, David C., Beroukhim, Rameen, Torrents, David, Korbel, Jan O., Martincorena, Iñigo, Fitzgerald, Rebecca C., Van Loo, Peter, Kazazian, Haig H., Burns, Kathleen H., Campbell, Peter J., Tubio, Jose M. C.
Publicado en Nat Genet (2020)

Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia

por Puente, Xose S., Pinyol, Magda, Quesada, Víctor, Conde, Laura, Ordóñez, Gonzalo R., Villamor, Neus, Escaramis, Georgia, Jares, Pedro, Beà, Sílvia, González-Díaz, Marcos, Bassaganyas, Laia, Baumann, Tycho, Juan, Manel, López-Guerra, Mónica, Colomer, Dolors, Tubío, José M. C., López, Cristina, Navarro, Alba, Tornador, Cristian, Aymerich, Marta, Rozman, María, Hernández, Jesús M., Puente, Diana A., Freije, José M. P., Velasco, Gloria, Gutiérrez-Fernández, Ana, Costa, Dolors, Carrió, Anna, Guijarro, Sara, Enjuanes, Anna, Hernández, Lluís, Yagüe, Jordi, Nicolás, Pilar, Romeo-Casabona, Carlos M., Himmelbauer, Heinz, Castillo, Ester, Dohm, Juliane C., de Sanjosé, Silvia, Piris, Miguel A., de Alava, Enrique, Miguel, Jesús San, Royo, Romina, Gelpí, Josep L., Torrents, David, Orozco, Modesto, Pisano, David G., Valencia, Alfonso, Guigó, Roderic, Bayés, Mónica, Heath, Simon, Gut, Marta, Klatt, Peter, Marshall, John, Raine, Keiran, Stebbings, Lucy A., Futreal, P. Andrew, Stratton, Michael R., Campbell, Peter J., Gut, Ivo, López-Guillermo, Armando, Estivill, Xavier, Montserrat, Emili, López-Otín, Carlos, Campo, Elías
Publicado 2011

Haplotype-resolved diverse human genomes and integrated analysis of structural variation

por Ebert, Peter, Audano, Peter A., Zhu, Qihui, Rodriguez-Martin, Bernardo, Porubsky, David, Bonder, Marc Jan, Sulovari, Arvis, Ebler, Jana, Zhou, Weichen, Mari, Rebecca Serra, Yilmaz, Feyza, Zhao, Xuefang, Hsieh, PingHsun, Lee, Joyce, Kumar, Sushant, Lin, Jiadong, Rausch, Tobias, Chen, Yu, Ren, Jingwen, Santamarina, Martin, Höps, Wolfram, Ashraf, Hufsah, Chuang, Nelson T., Yang, Xiaofei, Munson, Katherine M., Lewis, Alexandra P., Fairley, Susan, Tallon, Luke J., Clarke, Wayne E., Basile, Anna O., Byrska-Bishop, Marta, Corvelo, André, Evani, Uday S., Lu, Tsung-Yu, Chaisson, Mark J.P., Chen, Junjie, Li, Chong, Brand, Harrison, Wenger, Aaron M., Ghareghani, Maryam, Harvey, William T., Raeder, Benjamin, Hasenfeld, Patrick, Regier, Allison A., Abel, Haley J., Hall, Ira M., Flicek, Paul, Stegle, Oliver, Gerstein, Mark B., Tubio, Jose M.C., Mu, Zepeng, Li, Yang I., Shi, Xinghua, Hastie, Alex R., Ye, Kai, Chong, Zechen, Sanders, Ashley D., Zody, Michael C., Talkowski, Michael E., Mills, Ryan E., Devine, Scott E., Lee, Charles, Korbel, Jan O., Marschall, Tobias, Eichler, Evan E.
Publicado en Science (2021)