Authors: Miguel+Ángel+Medina
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Journal Article

The Portuguese Beacon: sharing genomic variant data safely

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Jorge S Oliveira, Sara Sant’Ana, Miguel Santos, Daniel Faria
Database, Volume 2026, 2026, baag012, https://doi.org/10.1093/database/baag012
Published: 17 March 2026
Journal Article

The state of the human coding gene catalogues

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Miguel Maquedano, Daniel Cerdán-Vélez, Michael L Tress
Database, Volume 2025, 2025, baaf045, https://doi.org/10.1093/database/baaf045
Published: 24 September 2025
Journal Article

Empirical substitution models of protein evolution: database, relationships, and modeling considerations

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Paula Iglesias-Rivas, Roberto Del Amparo, Javier A Cabaleiro, Miguel Arenas
Database, Volume 2025, 2025, baaf052, https://doi.org/10.1093/database/baaf052
Published: 24 September 2025
Journal Article

Peptipedia v2.0: a peptide sequence database and user-friendly web platform. A major update

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Gabriel Cabas-Mora, Anamaría Daza, Nicole Soto-García, Valentina Garrido, Diego Alvarez, Marcelo Navarrete, Lindybeth Sarmiento-Varón, Julieta H Sepúlveda Yañez, Mehdi D Davari, Frederic Cadet, Álvaro Olivera-Nappa, Roberto Uribe-Paredes, David Medina-Ortiz
Database, Volume 2024, 2024, baae113, https://doi.org/10.1093/database/baae113
Published: 08 November 2024
Journal Article

SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population

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José M Moreno-Cabrera, Lidia Feliubadaló, Marta Pineda, Patricia Prada-Dacasa, Mireia Ramos-Muntada, Jesús Del Valle, Joan Brunet, Bernat Gel, María Currás-Freixes, Bruna Calsina, Milton E Salazar-Hidalgo, Marta Rodríguez-Balada, Bàrbara Roig, Sara Fernández-Castillejo, Mercedes Durán Domínguez, Mónica Arranz Ledo, Mar Infante Sanz, Adela Castillejo, Estela Dámaso … Conxi Lázaro
Database, Volume 2024, 2024, baae055, https://doi.org/10.1093/database/baae055
Published: 04 July 2024
Journal Article

MEDFORD: A human- and machine-readable metadata markup language

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Polina Shpilker, John Freeman, Hailey McKelvie, Jill Ashey, Jay-Miguel Fonticella, Hollie Putnam, Jane Greenberg, Lenore Cowen, Alva Couch, Noah M Daniels
Database, Volume 2022, 2022, baac065, https://doi.org/10.1093/database/baac065
Published: 17 August 2022
Journal Article

Peptipedia: a user-friendly web application and a comprehensive database for peptide research supported by Machine Learning approach

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Cristofer Quiroz, Yasna Barrera Saavedra, Benjamín Armijo-Galdames, Juan Amado-Hinojosa, Álvaro Olivera-Nappa, Anamaria Sanchez-Daza, David Medina-Ortiz
Database, Volume 2021, 2021, baab055, https://doi.org/10.1093/database/baab055
Published: 03 September 2021
Journal Article

CorkOakDB—The Cork Oak Genome Database Portal

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Cirenia Arias-Baldrich, Marta Contreiras Silva, Filippo Bergeretti, Inês Chaves, Célia Miguel, Nelson J M Saibo, Daniel Sobral, Daniel Faria, Pedro M Barros
Database, Volume 2020, 2020, baaa114, https://doi.org/10.1093/database/baaa114
Published: 31 December 2020
Journal Article

CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats

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Alejandro Rubio, Pablo Mier, Miguel A Andrade-Navarro, Andrés Garzón, Juan Jiménez, Antonio J Pérez-Pulido
Database, Volume 2020, 2020, baaa088, https://doi.org/10.1093/database/baaa088
Published: 18 November 2020
Journal Article

MIPPIE: the mouse integrated protein–protein interaction reference

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Gregorio Alanis-Lobato, Jannik S Möllmann, Martin H Schaefer, Miguel A Andrade-Navarro
Database, Volume 2020, 2020, baaa035, https://doi.org/10.1093/database/baaa035
Published: 04 June 2020
Journal Article

Revenant: a database of resurrected proteins

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Matias Sebastian Carletti, Alexander Miguel Monzon, Emilio Garcia-Rios, Guillermo Benitez, Layla Hirsh, Maria Silvina Fornasari, Gustavo Parisi
Database, Volume 2020, 2020, baaa031, https://doi.org/10.1093/database/baaa031
Published: 13 May 2020
Journal Article

APID database: redefining protein–protein interaction experimental evidences and binary interactomes

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Diego Alonso-López, Francisco J Campos-Laborie, Miguel A Gutiérrez, Luke Lambourne, Michael A Calderwood, Marc Vidal, Javier De Las Rivas
Database, Volume 2019, 2019, baz005, https://doi.org/10.1093/database/baz005
Published: 31 January 2019
Journal Article

PubTerm: a web tool for organizing, annotating and curating genes, diseases, molecules and other concepts from PubMed records

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José Garcia-Pelaez, David Rodriguez, Roberto Medina-Molina, Gerardo Garcia-Rivas, Carlos Jerjes-Sánchez, Victor Trevino
Database, Volume 2019, 2019, bay137, https://doi.org/10.1093/database/bay137
Published: 08 January 2019
Journal Article

The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge

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Martin Pérez-Pérez, Gael Pérez-Rodríguez, Obdulia Rabal, Miguel Vazquez, Julen Oyarzabal, Florentino Fdez-Riverola, Alfonso Valencia, Martin Krallinger, Anália Lourenço
Database, Volume 2016, 2016, baw120, https://doi.org/10.1093/database/baw120
Published: 19 August 2016
Journal Article

Abasy Atlas: a comprehensive inventory of systems, global network properties and systems-level elements across bacteria

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Miguel A. Ibarra-Arellano, Adrián I. Campos-González, Luis G. Treviño-Quintanilla, Andreas Tauch, Julio A. Freyre-González
Database, Volume 2016, 2016, baw089, https://doi.org/10.1093/database/baw089
Published: 30 May 2016
Journal Article

Ensembl comparative genomics resources

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Javier Herrero, Matthieu Muffato, Kathryn Beal, Stephen Fitzgerald, Leo Gordon, Miguel Pignatelli, Albert J. Vilella, Stephen M. J. Searle, Ridwan Amode, Simon Brent, William Spooner, Eugene Kulesha, Andrew Yates, Paul Flicek
Database, Volume 2016, 2016, baw053, https://doi.org/10.1093/database/baw053
Published: 02 May 2016
Journal Article

CoDNaS 2.0: a comprehensive database of protein conformational diversity in the native state

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Alexander Miguel Monzon, Cristian Oscar Rohr, María Silvina Fornasari, Gustavo Parisi
Database, Volume 2016, 2016, baw038, https://doi.org/10.1093/database/baw038
Published: 28 March 2016
Journal Article

ncRNA orthologies in the vertebrate lineage

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Miguel Pignatelli, Albert J. Vilella, Matthieu Muffato, Leo Gordon, Simon White, Paul Flicek, Javier Herrero
Database, Volume 2016, 2016, bav127, https://doi.org/10.1093/database/bav127
Published: 15 March 2016
Journal Article

Ensembl comparative genomics resources

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Javier Herrero, Matthieu Muffato, Kathryn Beal, Stephen Fitzgerald, Leo Gordon, Miguel Pignatelli, Albert J. Vilella, Stephen M. J. Searle, Ridwan Amode, Simon Brent, William Spooner, Eugene Kulesha, Andrew Yates, Paul Flicek
Database, Volume 2016, 2016, bav096, https://doi.org/10.1093/database/bav096
Published: 20 February 2016
Journal Article

kpath: integration of metabolic pathway linked data

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Ismael Navas-Delgado, María Jesús García-Godoy, Esteban López-Camacho, Maciej Rybinski, Armando Reyes-Palomares, Miguel Ángel Medina, José F. Aldana-Montes
Database, Volume 2015, 2015, bav053, https://doi.org/10.1093/database/bav053
Published: 08 June 2015