Browsing by Author "Valencia, Alfonso"

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  • Carrillo-de-Santa Pau, Enrique; Juan, David; Pancaldi, Vera; Were, Felipe; Martin-Subero, José Ignacio; Rico, Daniel; Valencia, Alfonso; BLUEPRINT Consortium (Oxford University Press, 2017)
    Hematopoiesis is one of the best characterized biological systems but the connection between chromatin changes and lineage differentiation is not yet well understood. We have developed a bioinformatic workflow to generate ...
  • Frenkel-Morgenstern, Milana; Lacroix, Vincent; Ezkurdia, Iakes; Levin, Yishai; Gabashvili, Alexandra; Prilusky, Jaime; Pozo, Angela del; Tress, Michael; Johnson, Rory; Guigó Serra, Roderic; Valencia, Alfonso (Cold Spring Harbor Laboratory Press (CSHL Press), 2012)
    Chimeric RNAs comprise exons from two or more different genes and have the potential to encode novel proteins that alter cellular phenotypes. To date, numerous putative chimeric transcripts have been identified among the ...
  • Porta-Pardo, Eduard; Kamburov, Atanas; Tamborero Noguera, David; Pons, Tirso; Grases, Daniela; Valencia, Alfonso; López Bigas, Núria; Getz, Gad; Godzik, Adam (Nature Publishing Group, 2017)
    Understanding genetic events that lead to cancer initiation and progression remains one of the biggest challenges in cancer biology. Traditionally, most algorithms for cancer-driver identification look for genes that have ...
  • Earl, Julie; Rico, Daniel; Carrillo, Enrique; Rodríguez Santiago, Benjamín; Méndez Pertuz, Marinela; Auer, Herbert; Gómez, Gonzalo; Barton Grossman, Herbert; Pisano, David G.; Schulz, Wolfgang; Pérez Jurado, Luis Alberto; Carrato, Alfredo; Theodorescu, Dan; Chanock, Stephen J.; Valencia, Alfonso; Real, Francisco X. (BioMed Central, 2015)
    Following the publication of our recent article in BMC Genomics [1] a number of aspects were called to our attention. We have carefully reviewed the experiments reported in this manuscript, as well as additional data from ...
  • Rigau, Maria; Juan Sopeña, David Alejandro, 1975-; Valencia, Alfonso; Rico, Daniel (Public Library of Science (PLoS), 2019)
    Introns can be extraordinarily large and they account for the majority of the DNA sequence in human genes. However, little is known about their population patterns of structural variation and their functional implication. ...
  • Cañada, Andrés; Capella Gutiérrez, Salvador Jesús, 1985-; Rabal, Obdulia; Oyarzábal, Julen; Valencia, Alfonso; Krallinger, Martin (Oxford University Press, 2017)
    A considerable effort has been devoted to retrieve systematically information for genes and proteins as well as relationships between them. Despite the importance of chemical compounds and drugs as a central bio-entity in ...
  • Joshi, Ricky S.; Rigau, Maria; García-Prieto, Carlos A.; Castro de Moura, Manuel; Piñeyro, David; Moran, Sebastian; Davalos, Veronica; Carrión, Pablo; Ferrando-Bernal, Manuel, 1990-; Olalde Marquínez, Íñigo, 1987-; Lalueza Fox, Carles, 1965-; Navarro i Cuartiellas, Arcadi, 1969-; Fernández-Tena, Carles; Aspandi, Decky; Sukno, Federico Mateo; Binefa i Valls, Xavier; Valencia, Alfonso; Esteller, Manel (Elsevier, 2022)
    The human face is one of the most visible features of our unique identity as individuals. Interestingly, monozygotic twins share almost identical facial traits and the same DNA sequence but could exhibit differences in ...
  • Rodríguez Santiago, Benjamín; Malats i Riera, Núria; Rothman, Nathaniel; Armengol i Dulcet, Lluís; García Closas, Montserrat; Kogevinas, Manolis; Villa, Olaya; Hutchinson, Amy; Earl, Julie; Marenne, Gaëlle; Jacobs, Kevin; Rico, Daniel; Tardón, Adonina; Carrato, Alfredo; Thomas, Gilles; Valencia, Alfonso; Silverman, Debra T.; Real, Francisco X.; Chanock, Stephen J.; Pérez Jurado, Luis Alberto (Elsevier, 2010)
    Mosaicism is defined as the coexistence of cells with different genetic composition within an individual, caused by postzygotic somatic mutation. Although somatic mosaicism for chromosomal abnormalities is a well-established ...
  • Pérez-Pérez, Martin; Pérez-Rodríguez, Gael; Blanco-Míguez, Aitor; Fdez-Riverola, Florentino; Valencia, Alfonso; Krallinger, Martin; Lourenço, Anália (Springer, 2019)
    Background: Shared tasks and community challenges represent key instruments to promote research, collaboration and determine the state of the art of biomedical and chemical text mining technologies. Traditionally, such ...
  • Richart, Laia; Lapi, Eleonora; Pancaldi, Vera; Cuenca-Ardura, Mirabai; Carrillo-de-Santa Pau, Enrique; Madrid-Mencía, Miguel; Neyret-Kahn, Hélène; Radvanyi, François; Rodríguez, Juan Antonio; Cuartero, Yasmina; Serra, François; Le Dily, François; Valencia, Alfonso; Martí Renom, Marc A.; Real, Francisco X. (Oxford University Press, 2021)
    Cohesin exists in two variants containing STAG1 or STAG2. STAG2 is one of the most mutated genes in cancer and a major bladder tumor suppressor. Little is known about how its inactivation contributes to tumorigenesis. Here, ...
  • Earl, Julie; Rico, Daniel; Carrillo, Enrique; Rodríguez Santiago, Benjamín; Méndez Pertuz, Marinela; Auer, Herbert; Gómez, Gonzalo; Barton Grossman, Herbert; Pisano, David G.; Schulz, Wolfgang; Pérez Jurado, Luis Alberto; Carrato, Alfredo; Theodorescu, Dan; Chanock, Stephen J.; Valencia, Alfonso; Real, Francisco X. (BioMed Central, 2015)
    Background. Urothelial bladder cancer is a highly heterogeneous disease. Cancer cell lines are useful tools for its study. This is a comprehensive genomic characterization of 40 urothelial bladder carcinoma (UBC) cell lines ...

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