Works matching AU Abascal, Federico

Results: 34

MtArt: A New Model of Amino Acid Replacement for Arthropoda.

Published in:

Molecular Biology & Evolution, 2007, v. 24, n. 1, p. 1

By:

Abascal, Federico;
Posada, David;
Zardoya, Rafael

Publication type:

Article

Somatic Mutations Detected in Parkinson Disease Could Affect Genes With a Role in Synaptic and Neuronal Processes.

Published in:

Frontiers in Aging, 2022, p. 1, doi. 10.3389/fragi.2022.851039

By:

Lobon, Irene;
Solís-Moruno, Manuel;
Juan, David;
Muhaisen, Ashraf;
Abascal, Federico;
Esteller-Cucala, Paula;
García-Pérez, Raquel;
Martí, Maria Josep;
Tolosa, Eduardo;
Ávila, Jesús;
Rahbari, Raheleh;
Marques-Bonet, Tomas;
Casals, Ferran;
Soriano, Eduardo

Publication type:

Article

TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations.

Published in:

Nucleic Acids Research, 2010, v. 38, n. suppl_2, p. W7, doi. 10.1093/nar/gkq291

By:

Abascal, Federico;
Zardoya, Rafael;
Telford, Maximilian J.

Publication type:

Article

CentrosomeDB: a human centrosomal proteins database.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D175, doi. 10.1093/nar/gkn815

By:

Nogales-Cadenas, Rubén;
Abascal, Federico;
Díez-Pérez, Javier;
Carazo, José María;
Pascual-Montano, Alberto

Publication type:

Article

GenDecoder: genetic code prediction for metazoan mitochondria.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 11, p. w389, doi. 10.1093/nar/gkl044

By:

Abascal, Federico;
Zardoya, Rafael;
Posada, David

Publication type:

Article

Extreme genomic erosion after recurrent demographic bottlenecks in the highly endangered Iberian lynx.

Published in:

Genome Biology, 2016, v. 17, p. 1, doi. 10.1186/s13059-016-1090-1

By:

Abascal, Federico;
Corvelo, André;
Cruz, Fernando;
Villanueva-Cañas, José L.;
Vlasova, Anna;
Marcet-Houben, Marina;
Martínez-Cruz, Begoña;
Jade Yu Cheng;
Prieto, Pablo;
Quesada, Víctor;
Quilez, Javier;
Gang Li;
García, Francisca;
Rubio-Camarillo, Miriam;
Frias, Leonor;
Ribeca, Paolo;
Capella-Gutiérrez, Salvador;
Rodríguez, José M.;
Câmara, Francisco;
Lowy, Ernesto

Publication type:

Article

Automatic annotation of protein function based on family identification.

Published in:

Proteins, 2003, v. 53, n. 3, p. 683, doi. 10.1002/prot.10449

By:

Federico Abascal;
Alfonso Valencia

Publication type:

Article

The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates.

Published in:

Molecular Cancer, 2022, v. 21, n. 1, p. 1, doi. 10.1186/s12943-022-01644-3

By:

Buhigas, Claudia;
Warren, Anne Y.;
Leung, Wing-Kit;
Whitaker, Hayley C.;
Luxton, Hayley J.;
Hawkins, Steve;
Kay, Jonathan;
Butler, Adam;
Xu, Yaobo;
Woodcock, Dan J.;
Merson, Sue;
Frame, Fiona M.;
Sahli, Atef;
Abascal, Federico;
CRUK-ICGC Prostate Cancer Group;
Gihawi, Abraham;
Lambert, Adam;
Thompson, Alan;
Futreal, Andrew;
Menzies, Andrew

Publication type:

Article

ProtTest: selection of best-fit models of protein evolution.

Published in:

Bioinformatics, 2005, v. 21, n. 9, p. 2104, doi. 10.1093/bioinformatics/bti263

By:

Federico Abascal;
Rafael Zardoya;
David Posada

Publication type:

Article

Clustering of proximal sequence space for the identification of protein families.

Published in:

Bioinformatics, 2002, v. 18, n. 7, p. 908, doi. 10.1093/bioinformatics/18.7.908

By:

Abascal, Federico;
Valencia, Alfonso

Publication type:

Article

Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis.

Published in:

Communications Biology, 2020, v. 3, n. 1, p. 1, doi. 10.1038/s42003-019-0741-7

By:

Carlevaro-Fita, Joana;
Lanzós, Andrés;
Feuerbach, Lars;
Hong, Chen;
Mas-Ponte, David;
Pedersen, Jakob Skou;
PCAWG Drivers and Functional Interpretation Group;
Abascal, Federico;
Amin, Samirkumar B.;
Bader, Gary D.;
Barenboim, Jonathan;
Beroukhim, Rameen;
Bertl, Johanna;
Boroevich, Keith A.;
Brunak, Søren;
Campbell, Peter J.;
Chakravarty, Dimple;
Chan, Calvin Wing Yiu;
Chen, Ken;
Choi, Jung Kyoon

Publication type:

Article

Origins and Evolution of Human Tandem Duplicated Exon Substitution Events.

Published in:

Genome Biology & Evolution, 2022, v. 14, n. 12, p. 1, doi. 10.1093/gbe/evac162

By:

Martinez-Gomez, Laura;
Cerdán-Vélez, Daniel;
Abascal, Federico;
Tress, Michael L

Publication type:

Article

An Ancient Baboon Genome Demonstrates Long-Term Population Continuity in Southern Africa.

Published in:

Genome Biology & Evolution, 2020, v. 12, n. 4, p. 407, doi. 10.1093/gbe/evaa019

By:

Mathieson, Iain;
Abascal, Federico;
Vinner, Lasse;
Skoglund, Pontus;
Pomilla, Cristina;
Mitchell, Peter;
Arthur, Charles;
Gurdasani, Deepti;
Willerslev, Eske;
Sandhu, Manj S;
Dewar, Genevieve

Publication type:

Article

The Evolutionary Fate of Alternatively Spliced Homologous Exons after Gene Duplication.

Published in:

Genome Biology & Evolution, 2015, v. 7, n. 6, p. 1392, doi. 10.1093/gbe/evv076

By:

Abascal, Federico;
Tress, Michael L.;
Valencia, Alfonso

Publication type:

Article

Inherited MUTYH mutations cause elevated somatic mutation rates and distinctive mutational signatures in normal human cells.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31341-0

By:

Robinson, Philip S.;
Thomas, Laura E.;
Abascal, Federico;
Jung, Hyunchul;
Harvey, Luke M. R.;
West, Hannah D.;
Olafsson, Sigurgeir;
Lee, Bernard C. H.;
Coorens, Tim H. H.;
Lee-Six, Henry;
Butlin, Laura;
Lander, Nicola;
Truscott, Rebekah;
Sanders, Mathijs A.;
Lensing, Stefanie V.;
Buczacki, Simon J. A.;
ten Hoopen, Rogier;
Coleman, Nicholas;
Brunton-Sim, Roxanne;
Rushbrook, Simon

Publication type:

Article

Diversity of mechanisms to control bacterial GTP homeostasis by the mutually exclusive binding of adenine and guanine nucleotides to IMP dehydrogenase.

Published in:

Protein Science: A Publication of the Protein Society, 2022, v. 31, n. 5, p. 1, doi. 10.1002/pro.4314

By:

Fernández‐Justel, David;
Marcos‐Alcalde, Íñigo;
Abascal, Federico;
Vidaña, Nerea;
Gómez‐Puertas, Paulino;
Jiménez, Alberto;
Revuelta, José L.;
Buey, Rubén M.

Publication type:

Article

Subfunctionalization via Adaptive Evolution Influenced by Genomic Context: The Case of Histone Chaperones ASF1a and ASF1b.

Published in:

Molecular Biology & Evolution, 2013, v. 30, n. 8, p. 1853, doi. 10.1093/molbev/mst086

By:

Abascal, Federico;
Corpet, Armelle;
Gurard-Levin, Zachary A.;
Juan, David;
Ochsenbein, Françoise;
Rico, Daniel;
Valencia, Alfonso;
Almouzni, Geneviève

Publication type:

Article

Alternative splicing and co-option of transposable elements: the case of TMPO/LAP2a and ZNF451 in mammals.

Published in:

Bioinformatics, 2015, v. 31, n. 14, p. 2257, doi. 10.1093/bioinformatics/btv132

By:

Abascal, Federico;
Tress, Michael L.;
Valencia, Alfonso

Publication type:

Article

ChIPCodis: mining complex regulatory systems in yeast by concurrent enrichment analysis of chip-on-chip data.

Published in:

Bioinformatics, 2008, v. 24, n. 9, p. 1208, doi. 10.1093/bioinformatics/btn094

By:

Federico Abascal;
Pedro Carmona-Saez;
Jose-Maria Carazo;
Alberto Pascual-Montano

Publication type:

Article

LRRC8 proteins share a common ancestor with pannexins, and may form hexameric channels involved in cell-cell communication.

Published in:

BioEssays, 2012, v. 34, n. 7, p. 551, doi. 10.1002/bies.201100173

By:

Abascal, Federico;
Zardoya, Rafael

Publication type:

Article

The origin of modern frogs (Neobatrachia) was accompanied by acceleration in mitochondrial and nuclear substitution rates.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 626, doi. 10.1186/1471-2164-13-626

By:

Irisarri, Iker;
San Mauro, Diego;
Abascal, Federico;
Ohler, Annemarie;
Vences, Miguel;
Zardoya, Rafael

Publication type:

Article

Alternatively Spliced Homologous Exons Have Ancient Origins and Are Highly Expressed at the Protein Level.

Published in:

PLoS Computational Biology, 2015, v. 11, n. 6, p. 1, doi. 10.1371/journal.pcbi.1004325

By:

Abascal, Federico;
Ezkurdia, Iakes;
Rodriguez-Rivas, Juan;
Rodriguez, Jose Manuel;
del Pozo, Angela;
Vázquez, Jesús;
Valencia, Alfonso;
Tress, Michael L.

Publication type:

Article

Evidence for widespread translation of 5′ untranslated regions.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 14, p. 8112, doi. 10.1093/nar/gkae571

By:

Rodriguez, Jose Manuel;
Abascal, Federico;
Cerdán-Vélez, Daniel;
Gómez, Laura Martínez;
Vázquez, Jesús;
Tress, Michael L

Publication type:

Article

The clinical importance of tandem exon duplication-derived substitutions.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 14, p. 8232, doi. 10.1093/nar/gkab623

By:

Martinez Gomez, Laura;
Pozo, Fernando;
Walsh, Thomas A;
Abascal, Federico;
Tress, Michael L

Publication type:

Article

Loose ends: almost one in five human genes still have unresolved coding status.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 22, p. 12194, doi. 10.1093/nar/gky1146

By:

Abascal, Federico;
Juan, David;
Jungreis, Irwin;
Kellis, Manolis;
Martinez, Laura;
Rigau, Maria;
Rodriguez, Jose Manuel;
Vazquez, Jesus;
Tress, Michael L

Publication type:

Article

Loose ends: almost one in five human genes still have unresolved coding status.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 14, p. 7070, doi. 10.1093/nar/gky587

By:

Abascal, Federico;
Juan, David;
Jungreis, Irwin;
Martinez, Laura;
Rigau, Maria;
Rodriguez, Jose Manuel;
Vazquez, Jesus;
Tress, Michael L

Publication type:

Article

Whole-genome sequencing reveals progressive versus stable myeloma precursor conditions as two distinct entities.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-22140-0

By:

Oben, Bénedith;
Froyen, Guy;
Maclachlan, Kylee H.;
Leongamornlert, Daniel;
Abascal, Federico;
Zheng-Lin, Binbin;
Yellapantula, Venkata;
Derkach, Andriy;
Geerdens, Ellen;
Diamond, Benjamin T.;
Arijs, Ingrid;
Maes, Brigitte;
Vanhees, Kimberly;
Hultcrantz, Malin;
Manasanch, Elisabet E.;
Kazandjian, Dickran;
Lesokhin, Alexander;
Dogan, Ahmet;
Zhang, Yanming;
Mikulasova, Aneta

Publication type:

Article

Mutational signatures are jointly shaped by DNA damage and repair.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-020-15912-7

By:

Volkova, Nadezda V.;
Meier, Bettina;
González-Huici, Víctor;
Bertolini, Simone;
Gonzalez, Santiago;
Vöhringer, Harald;
Abascal, Federico;
Martincorena, Iñigo;
Campbell, Peter J.;
Gartner, Anton;
Gerstung, Moritz

Publication type:

Article

Author Correction: Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis.

Published in:

2022

By:

Carlevaro-Fita, Joana;
Lanzós, Andrés;
Feuerbach, Lars;
Hong, Chen;
Mas-Ponte, David;
Pedersen, Jakob Skou;
Abascal, Federico;
Amin, Samirkumar B.;
Bader, Gary D.;
Barenboim, Jonathan;
Beroukhim, Rameen;
Bertl, Johanna;
Boroevich, Keith A.;
Brunak, Søren;
Campbell, Peter J.;
Chakravarty, Dimple;
Chan, Calvin Wing Yiu;
Chen, Ken;
Choi, Jung Kyoon;
Deu-Pons, Jordi

Publication type:

Correction Notice

Integrative pathway enrichment analysis of multivariate omics data.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-019-13983-9

By:

Paczkowska, Marta;
Barenboim, Jonathan;
Sintupisut, Nardnisa;
Fox, Natalie S.;
Zhu, Helen;
Abd-Rabbo, Diala;
Mee, Miles W.;
Boutros, Paul C.;
PCAWG Drivers and Functional Interpretation Working Group;
Abascal, Federico;
Amin, Samirkumar B.;
Bader, Gary D.;
Beroukhim, Rameen;
Bertl, Johanna;
Boroevich, Keith A.;
Brunak, Søren;
Campbell, Peter J.;
Carlevaro-Fita, Joana;
Chakravarty, Dimple;
Chan, Calvin Wing Yiu

Publication type:

Article

Combined burden and functional impact tests for cancer driver discovery using DriverPower.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-019-13929-1

By:

Shuai, Shimin;
PCAWG Drivers and Functional Interpretation Working Group;
Abascal, Federico;
Amin, Samirkumar B.;
Bader, Gary D.;
Bandopadhayay, Pratiti;
Barenboim, Jonathan;
Beroukhim, Rameen;
Bertl, Johanna;
Boroevich, Keith A.;
Brunak, Søren;
Campbell, Peter J.;
Carlevaro-Fita, Joana;
Chakravarty, Dimple;
Chan, Calvin Wing Yiu;
Chen, Ken;
Choi, Jung Kyoon;
Deu-Pons, Jordi;
Dhingra, Priyanka;
Diamanti, Klev

Publication type:

Article

Genomic landscape and chronological reconstruction of driver events in multiple myeloma.

Published in:

Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-11680-1

By:

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

Publication type:

Article

Cross-species oncogenomics offers insight into human muscle-invasive bladder cancer.

Published in:

Genome Biology, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s13059-023-03026-4

By:

Wong, Kim;
Abascal, Federico;
Ludwig, Latasha;
Aupperle-Lellbach, Heike;
Grassinger, Julia;
Wright, Colin W.;
Allison, Simon J.;
Pinder, Emma;
Phillips, Roger M.;
Romero, Laura P.;
Gal, Arnon;
Roady, Patrick J.;
Pires, Isabel;
Guscetti, Franco;
Munday, John S.;
Peleteiro, Maria C.;
Pinto, Carlos A.;
Carvalho, Tânia;
Cota, João;
Du Plessis, Elizabeth C.

Publication type:

Article

De novo assembly of English yew (Taxus baccata) transcriptome and its applications for intra- and inter-specific analyses.

Published in:

Plant Molecular Biology, 2018, v. 97, n. 4-5, p. 337, doi. 10.1007/s11103-018-0742-9

By:

Olsson, Sanna;
Pinosio, Sara;
González-Martínez, Santiago C.;
Abascal, Federico;
Mayol, Maria;
Grivet, Delphine;
Vendramin, Giovanni G.

Publication type:

Article