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

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

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

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

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

od 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.
Wydane w Genes Chromosomes Cancer (2017)

A second transmissible cancer in Tasmanian devils

od 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.
Wydane w Proc Natl Acad Sci U S A (2016)

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

od 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.
Wydane 2014

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

od 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.
Wydane w Nat Commun (2020)

Genomic landscape and chronological reconstruction of driver events in multiple myeloma

od 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.
Wydane w Nat Commun (2019)

The Origins and Vulnerabilities of Two Transmissible Cancers in Tasmanian Devils

od 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.
Wydane w Cancer Cell (2018)

The Evolutionary History of Lethal Metastatic Prostate Cancer

od 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
Wydane w Nature (2015)

Heterogeneity of genomic evolution and mutational profiles in multiple myeloma

od 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.
Wydane 2014

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

od 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
Wydane 2014

An integrated genomic analysis of anaplastic meningioma identifies prognostic molecular signatures

od 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
Wydane w Sci Rep (2018)

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

od 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.
Wydane w Cell (2019)

Processed pseudogenes acquired somatically during cancer development

od 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.
Wydane 2014

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

od 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.
Wydane w Genome Res (2015)

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

od 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.
Wydane w Genome Res (2016)

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

od 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.
Wydane w Nat Genet (2020)

Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia

od 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
Wydane 2011

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

od 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.
Wydane w Science (2021)

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

od Tubio, Jose M. C., Li, Yilong, Ju, Young Seok, Martincorena, Inigo, Cooke, Susanna L., Tojo, Marta, Gundem, Gunes, Pipinikas, Christodoulos P., Zamora, Jorge, Raine, Keiran, Menzies, Andrew, Roman-Garcia, Pablo, Fullam, Anthony, Gerstung, Moritz, Shlien, Adam, Tarpey, Patrick S., Papaemmanuil, Elli, Knappskog, Stian, Van Loo, Peter, Ramakrishna, Manasa, Davies, Helen R., Marshall, John, Wedge, David C., Teague, Jon W., Butler, Adam P., Nik-Zainal, Serena, Alexandrov, Ludmil, Behjati, Sam, Yates, Lucy R., Bolli, Niccolo, Mudie, Laura, Hardy, Claire, Martin, Sancha, McLaren, Stuart, O'Meara, Sarah, Anderson, Elizabeth, Maddison, Mark, Gamble, Stephen, Foster, Christopher, Warren, Anne Y., Whitaker, Hayley, Brewer, Daniel, Eeles, Rosalind, Cooper, Colin, Neal, David, Lynch, Andy G., Visakorpi, Tapio, Isaacs, William B., Veer, Laura van't, Caldas, Carlos, Desmedt, Christine, Sotiriou, Christos, Aparicio, Sam, Foekens, John A., Eyfjörd, Jórunn Erla, Lakhani, Sunil R., Thomas, Gilles, Myklebost, Ola, Span, Paul N., Børresen-Dale, Anne-Lise, Richardson, Andrea L., Van de Vijver, Marc, Vincent-Salomon, Anne, Van den Eynden, Gert G., Flanagan, Adrienne M., Futreal, P. Andrew, Janes, Sam M., Bova, G. Steven, Stratton, Michael R., McDermott, Ultan, Campbell, Peter J.
Wydane w Science (2014)