Works by Valencia, Alfonso

Results: 257

Clinical and Epidemiological Characteristics of Burkitt Lymphomas in Pediatric Patients from Two Defined Socioeconomic Regions in Mexico.

Published in:

2017

By:

Rendón-Macías, Mario Enrique;
Valencia-Ramón, Edwin Alfonso;
Fajardo-Gutiérrez, Arturo;
Enrique Rendón-Macías, Mario;
Alfonso Valencia-Ramón, Edwin

Publication type:

journal article

Identification of amino acid residues crucial for chemokine receptor dimerization.

Published in:

Nature Immunology, 2004, v. 5, n. 2, p. 216, doi. 10.1038/ni1027

By:

Hernanz-Falcon, Patria;
Rodriguez-Frade, Jose Miguel;
Serrano, Antonio;
Juan, David;
Del Sol, Antonio;
Soriano, Silvia F.;
Roncal, Fernando;
Gomez, Lucio;
Valencia, Alfonso;
Martinez-A, Carlos;
Mellado, Mario

Publication type:

Article

Protection against reinfection with D614- or G614-SARS-CoV-2 isolates in golden Syrian hamster.

Published in:

Emerging Microbes & Infections, 2021, v. 10, n. 1, p. 797, doi. 10.1080/22221751.2021.1913974

By:

Brustolin, Marco;
Rodon, Jordi;
Rodríguez de la Concepción, María Luisa;
Ávila-Nieto, Carlos;
Cantero, Guillermo;
Pérez, Mónica;
Te, Nigeer;
Noguera-Julián, Marc;
Guallar, Víctor;
Valencia, Alfonso;
Roca, Núria;
Izquierdo-Useros, Nuria;
Blanco, Julià;
Clotet, Bonaventura;
Bensaid, Albert;
Carrillo, Jorge;
Vergara-Alert, Júlia;
Segalés, Joaquim

Publication type:

Article

Relación del equilibrio ácido-base y supervivencia en adultos con diagnóstico de trauma en la unidad de cuidados intensivos del Hospital Universitario San Jorge. 2009-2010, Pereira, Colombia.

Published in:

Médicas UIS, 2015, v. 28, n. 3, p. 273, doi. 10.18273/revmed.v28n3-2015001

By:

Aristizabal, Raúl Eduardo;
Martínez, José William;
Montoya-Cañón, Mauricio;
Valencia, Luis Alfonso;
Calvo-Torres, Luis Felipe;
Barbosa-Gantiva, Oscar;
Hincapié, Vanesa

Publication type:

Article

Text Mining for Drugs and Chemical Compounds: Methods, Tools and Applications.

Published in:

Molecular Informatics, 2011, v. 30, n. 6/7, p. 506, doi. 10.1002/minf.201100005

By:

Vazquez, Miguel;
Krallinger, Martin;
Leitner, Florian;
Valencia, Alfonso

Publication type:

Article

Artificial intelligence in cancer research: learning at different levels of data granularity.

Published in:

Molecular Oncology, 2021, v. 15, n. 4, p. 817, doi. 10.1002/1878-0261.12920

By:

Cirillo, Davide;
Núñez‐Carpintero, Iker;
Valencia, Alfonso

Publication type:

Article

Prevalence and differences in the co-administration of drugs known to interact: an analysis of three distinct and large populations.

Published in:

BMC Medicine, 2024, v. 22, n. 1, p. 1, doi. 10.1186/s12916-024-03384-1

By:

Sánchez-Valle, Jon;
Correia, Rion Brattig;
Camacho-Artacho, Marta;
Lepore, Rosalba;
Mattos, Mauro M.;
Rocha, Luis M.;
Valencia, Alfonso

Publication type:

Article

Intronic CNVs and gene expression variation in human populations.

Published in:

PLoS Genetics, 2019, v. 15, n. 1, p. 1, doi. 10.1371/journal.pgen.1007902

By:

Rigau, Maria;
Juan, David;
Valencia, Alfonso;
Rico, Daniel

Publication type:

Article

Analysis of the Cellular Functions of Escherichia coli Operons and Their Conservation in Bacillus subtilis.

Published in:

Journal of Molecular Evolution, 2002, v. 55, n. 2, p. 211, doi. 10.1007/s00239-002-2317-1

By:

de Daruvar, Antoine;
Collado-Vides, Julio;
Valencia, Alfonso

Publication type:

Article

3Dmapper: a command line tool for BioBank-scale mapping of variants to protein structures.

Published in:

Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae171

By:

Ruiz-Serra, Victoria;
Valentini, Samuel;
Madroñero, Sergi;
Valencia, Alfonso;
Porta-Pardo, Eduard

Publication type:

Article

ECCB2022: the 21st European Conference on Computational Biology.

Published in:

Bioinformatics, 2022, v. 38, p. ii1, doi. 10.1093/bioinformatics/btac560

By:

Capella-Gutierrez, Salvador;
Alloza, Eva;
Rubinat-Ripoll, Laura;
Committee, the ECCB2022 Organising;
Conesa, Ana;
Valencia, Alfonso

Publication type:

Article

Detection of oncogenic and clinically actionable mutations in cancer genomes critically depends on variant calling tools.

Published in:

Bioinformatics, 2022, v. 38, n. 12, p. 3181, doi. 10.1093/bioinformatics/btac306

By:

Garcia-Prieto, Carlos A;
Martínez-Jiménez, Francisco;
Valencia, Alfonso;
Porta-Pardo, Eduard

Publication type:

Article

ECCB2020: the 19th European Conference on Computational Biology.

Published in:

Bioinformatics, 2020, v. 36, p. i569, doi. 10.1093/bioinformatics/btaa979

By:

Capella-Gutierrez, Salvador;
Alloza, Eva;
Gallastegui, Edurne;
Kavakiotis, Ioannis;
Harrow, Jen;
Langtry, Alberto;
Committee, the ECCB2020 Steering;
Valencia, Alfonso

Publication type:

Article

COVID-19 Flow-Maps an open geographic information system on COVID-19 and human mobility for Spain.

Published in:

Scientific Data, 2021, v. 8, n. 1, p. 1, doi. 10.1038/s41597-021-01093-5

By:

Ponce-de-Leon, Miguel;
del Valle, Javier;
Fernandez, José María;
Bernardo, Marc;
Cirillo, Davide;
Sanchez-Valle, Jon;
Smith, Matthew;
Capella-Gutierrez, Salvador;
Gullón, Tania;
Valencia, Alfonso

Publication type:

Article

Á la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors.

Published in:

Molecular Microbiology, 2001, v. 42, n. 1, p. 47, doi. 10.1046/j.1365-2958.2001.02633.x

By:

Garmendia, Junkal;
Devos, Damien;
Valencia, Alfonso;
De Lorenzo, Victor

Publication type:

Article

Escherichia coli FtsZ polymers contain mostly GTP and have a high nucleotide turnover.

Published in:

Molecular Microbiology, 2001, v. 41, n. 1, p. 83, doi. 10.1046/j.1365-2958.2001.02498.x

By:

Mingorance, Jesús;
Rueda, Sonsoles;
Gómez-Puertas, Paulino;
Valencia, Alfonso;
Vicente, Miguel

Publication type:

Article

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data.

Published in:

Nucleic Acids Research, 2013, v. 41, p. d142, doi. 10.1093/nar/gks1041

By:

Frenkel-Morgenstern, Milana;
Gorohovski, Alessandro;
Lacroix, Vincent;
Rogers, Mark;
Ibanez, Kristina;
Boullosa, Cesar;
Leon, Eduardo Andres;
Ben-Hur, Asa;
Valencia, Alfonso

Publication type:

Article

APPRIS: annotation of principal and alternative splice isoforms.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D110, doi. 10.1093/nar/gks1058

By:

Manuel Rodriguez, Jose;
Maietta, Paolo;
Ezkurdia, Iakes;
Pietrelli, Alessandro;
Wesselink, Jan-Jaap;
Lopez, Gonzalo;
Valencia, Alfonso;
Tress, Michael L.

Publication type:

Article

firestar—advances in the prediction of functionally important residues.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_2, p. W235, doi. 10.1093/nar/gkr437

By:

Lopez, Gonzalo;
Maietta, Paolo;
Rodriguez, Jose Manuel;
Valencia, Alfonso;
Tress, Michael L.

Publication type:

Article

PLAN2L: a web tool for integrated text mining and literature-based bioentity relation extraction.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_2, p. W160, doi. 10.1093/nar/gkp484

By:

Krallinger, Martin;
Rodriguez-Penagos, Carlos;
Tendulkar, Ashish;
Valencia, Alfonso

Publication type:

Article

Bionemo: molecular information on biodegradation metabolism.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D598, doi. 10.1093/nar/gkn864

By:

Carbajosa, Guillermo;
Trigo, Almudena;
Valencia, Alfonso;
Cases, Ildefonso

Publication type:

Article

EcID. A database for the inference of functional interactions in E. coli.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D629, doi. 10.1093/nar/gkn853

By:

Andres Leon, Eduardo;
Ezkurdia, Iakes;
García, Beatriz;
Valencia, Alfonso;
Juan, David

Publication type:

Article

iHOP web services.

Published in:

Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W21, doi. 10.1093/nar/gkm298

By:

Fernández, José M.;
Hoffmann, Robert;
Valencia, Alfonso

Publication type:

Article

firestar—prediction of functionally important residues using structural templates and alignment reliability.

Published in:

Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W573, doi. 10.1093/nar/gkm297

By:

López, Gonzalo;
Valencia, Alfonso;
Tress, Michael L.

Publication type:

Article

CARGO: a web portal to integrate customized biological information.

Published in:

Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W16, doi. 10.1093/nar/gkm280

By:

Cases, Ildefonso;
Pisano, David G.;
Andres, Eduardo;
Carro, Angel;
Fernández, José M.;
Gómez-López, Gonzalo;
Rodriguez, Jose M.;
Vera, Jaime F.;
Valencia, Alfonso;
Rojas, Ana M.

Publication type:

Article

TreeDet: a web server to explore sequence space.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 11, p. w110, doi. 10.1093/nar/gkl203

By:

Carro, Angel;
Tress, Michael;
de Juan, David;
Pazos, Florencio;
Lopez-Romero, Pedro;
del Sol, Antonio;
Valencia, Alfonso;
Rojas, Ana M.

Publication type:

Article

TSEMA: interactive prediction of protein pairings between interacting families.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 11, p. w315, doi. 10.1093/nar/gkl112

By:

Izarzugaza, José M. G.;
Juan, David;
Pons, Carles;
Ranea, Juan A. G.;
Valencia, Alfonso;
Pazos, Florencio

Publication type:

Article

EVAcon: a protein contact prediction evaluation service.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w347, doi. 10.1093/nar/gki411

By:

Graña, Osvaldo;
Eyrich, Volker A.;
Pazos, Florencio;
Rost, Burkhard;
Valencia, Alfonso

Publication type:

Article

MetaRouter: bioinformatics for bioremediation.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d588

By:

Pazos, Florencio;
Guijas, David;
Valencia, Alfonso;
De Lorenzo, Victor

Publication type:

Article

HCAD, closing the gap between breakpoints and genes.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d511

By:

Hoffmann, Robert;
Dopazo, Joaquin;
Cigudosa, Juan C.;
Valencia, Alfonso

Publication type:

Article

IntAct: an open source molecular interaction database.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 1, p. d452

By:

Hermjakob, Henning;
Montecchi‐Palazzi, Luisa;
Lewington, Chris;
Mudali, Sugath;
Kerrien, Samuel;
Orchard, Sandra;
Vingron, Martin;
Roechert, Bernd;
Roepstorff, Peter;
Valencia, Alfonso;
Margalit, Hanah;
Armstrong, John;
Bairoch, Amos;
Cesareni, Gianni;
Sherman, David;
Apweiler, Rolf

Publication type:

Article

EVA: evaluation of protein structure prediction servers.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 13, p. 3311, doi. 10.1093/nar/gkg619

By:

Koh, Ingrid Y. Y.;
Eyrich, Volker A.;
Marti-Renom, Marc A.;
Przybylski, Dariusz;
Madhusudhan, Mallur S.;
Eswar, Narayanan;
Graña, Osvaldo;
Pazos, Florencio;
Valencia, Alfonso;
Sali, Andrej;
Rost, Burkhard

Publication type:

Article

Unveiling new disease, pathway, and gene associations via multi-scale neural network.

Published in:

PLoS ONE, 2020, v. 15, n. 4, p. 1, doi. 10.1371/journal.pone.0231059

By:

Gaudelet, Thomas;
Malod-Dognin, Noël;
Sánchez-Valle, Jon;
Pancaldi, Vera;
Valencia, Alfonso;
Pržulj, Nataša

Publication type:

Article

Understanding oncogenicity of cancer driver genes and mutations in the cancer genomics era.

Published in:

FEBS Letters, 2020, v. 594, n. 24, p. 4233, doi. 10.1002/1873-3468.13781

By:

Porta‐Pardo, Eduard;
Valencia, Alfonso;
Godzik, Adam

Publication type:

Article

DNA Sequencing and Analysis of 130 kb from Yeast Chromosome XV.

Published in:

Yeast, 1997, v. 13, n. 7, p. 655, doi. 10.1002/(SICI)1097-0061(19970615)13:7<655::AID-YEA120>3.0.CO;2-I

By:

VOSS, HARTMUT;
BENES, VLADIMIR;
ANDRADE, MIGUEL A.;
VALENCIA, ALFONSO;
RECHMANN, STEFANIE;
TEODORU, CRISTINA;
SCHWAGER, CHRISTIAN;
PACES, VACLAV;
SANDER, CHRIS;
ANSORGE, WILHELM

Publication type:

Article

Scoring docking models with evolutionary information.

Published in:

Proteins, 2005, v. 60, n. 2, p. 275, doi. 10.1002/prot.20570

By:

Tress, Michael;
de Juan, David;
Graña, Osvaldo;
Gómez, Manuel J.;
Gómez-Puertas, Paulino;
González, Jose M.;
López, Gonzalo;
Valencia, Alfonso

Publication type:

Article

Assessment of predictions submitted for the CASP6 comparative modeling category.

Published in:

Proteins, 2005, v. 61, n. S7, p. 27, doi. 10.1002/prot.20720

By:

Tress, Michael;
Ezkurdia, Iakes;
Graña, Osvaldo;
López, Gonzalo;
Valencia, Alfonso

Publication type:

Article

Domain definition and target classification for CASP6.

Published in:

Proteins, 2005, v. 61, n. S7, p. 8, doi. 10.1002/prot.20717

By:

Tress, Michael;
Tai, Chin-Hsien;
Wang, Guoli;
Ezkurdia, Iakes;
López, Gonzalo;
Valencia, Alfonso;
Lee, Byungkook;
Dunbrack, Roland L.

Publication type:

Article

CASP6 assessment of contact prediction.

Published in:

Proteins, 2005, v. 61, n. S7, p. 214, doi. 10.1002/prot.20739

By:

Graña, Osvaldo;
Baker, David;
MacCallum, Robert M.;
Meiler, Jens;
Punta, Marco;
Rost, Burkhard;
Tress, Michael L.;
Valencia, Alfonso

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

CAFASP3 in the spotlight of EVA.

Published in:

Proteins, 2003, v. 53, n. S6, p. 548, doi. 10.1002/prot.10534

By:

Eyrich, Volker A.;
Przybylski, Dariusz;
Koh, Ingrid Y.Y.;
Grana, Osvaldo;
Pazos, Florencio;
Valencia, Alfonso;
Rost, Burkhard

Publication type:

Article

Phage-display and correlated mutations identify an essential region of subdomain 1C involved in homodimerization of Escherichia coli FtsA.

Published in:

Proteins, 2003, v. 50, n. 2, p. 192, doi. 10.1002/prot.10244

By:

Carettoni, Daniele;
Gómez-Puertas, Paulino;
Yim, Lucía;
Mingorance, Jesús;
Massidda, Orietta;
Vicente, Miguel;
Valencia, Alfonso;
Domenici, Enrico;
Anderluzzi, Daniela

Publication type:

Article

In silico two-hybrid system for the selection of physically interacting protein pairs.

Published in:

Proteins, 2002, v. 47, n. 2, p. 219, doi. 10.1002/prot.10074

By:

Pazos, Florencio;
Valencia, Alfonso

Publication type:

Article

Threading structural model of the manganese-stabilizing protein PsbO reveals presence of two possible β-sandwich domains.

Published in:

Proteins, 2001, v. 45, n. 4, p. 372, doi. 10.1002/prot.10012

By:

Pazos, Florencio;
Heredia, Pedro;
Valencia, Alfonso;
de las Rivas, Javier

Publication type:

Article

CAFASP2: The second critical assessment of fully automated structure prediction methods.

Published in:

Proteins, 2001, v. 45, n. S5, p. 171, doi. 10.1002/prot.10036

By:

Fischer, Daniel;
Elofsson, Arne;
Rychlewski, Leszek;
Pazos, Florencio;
Valencia, Alfonso;
Rost, Burkhard;
Ortiz, Angel R.;
Dunbrack, Roland L.

Publication type:

Article

Progress in predicting inter-residue contacts of proteins with neural networks and correlated mutations.

Published in:

Proteins, 2001, v. 45, n. S5, p. 157, doi. 10.1002/prot.1173

By:

Fariselli, Piero;
Olmea, Osvaldo;
Valencia, Alfonso;
Casadio, Rita

Publication type:

Article

Practical limits of function prediction.

Published in:

Proteins, 2000, v. 41, n. 1, p. 98, doi. 10.1002/1097-0134(20001001)41:1<98::AID-PROT120>3.0.CO;2-S

By:

Devos, Damien;
Valencia, Alfonso

Publication type:

Article

Structural model for family 32 of glycosyl-hydrolase enzymes.

Published in:

Proteins, 1998, v. 33, n. 3, p. 383, doi. 10.1002/(SICI)1097-0134(19981115)33:3<383::AID-PROT7>3.0.CO;2-R

By:

Pons, Tirso;
Olmea, Osvaldo;
Chinea, Glay;
Beldarraín, Alejandro;
Márquez, Gabriel;
Acosta, Niuris;
Rodríguez, Luis;
Valencia, Alfonso

Publication type:

Article

Structural model of Dex protein from Penicillium minioluteumand its implications in the mechanism of catalysis.

Published in:

Proteins, 1998, v. 31, n. 4, p. 345, doi. 10.1002/(SICI)1097-0134(19980601)31:4<345::AID-PROT2>3.0.CO;2-H

By:

Pons, Tirso;
Chinea, Glay;
Olmea, Osvaldo;
Beldarraín, Alejandro;
Roca, Hernán;
Padrón, Gabriel;
Valencia, Alfonso

Publication type:

Article

Prediction of the structure of GroES and its interaction with GroEL.

Published in:

Proteins, 1995, v. 22, n. 3, p. 199, doi. 10.1002/prot.340220302

By:

Valencia, Alfonso;
Hubbard, Tim J.;
Muga, Arturo;
Bañuelos, Sonia;
Llorca, Oscar;
Carrascosa, José L.;
Valpuesta, José Marí

Publication type:

Article