Authors: Judith+Pérez-Granado
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Journal Article

ENcyclopedia of TRAnscription Factors in Bacteria and Archaea genomes (ENTRAF) version 2.0

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Silvia Tenorio-Salgado, Cinthia Rodríguez Maya, Edgardo Galan-Vasquez, André Borges Farias, Dulce Álvarez-López, Jose Luis Villalpando-Aguilar, Alberto J Martin, Leonardo Ledesma-Dominguez, Ernesto Perez-Rueda
Database, Volume 2025, 2025, baaf071, https://doi.org/10.1093/database/baaf071
Published: 29 October 2025
Journal Article

BrAPI v2: real-world applications for data integration and collaboration in the breeding and genetics community

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Peter Selby, Rafael Abbeloos, Anne-Francoise Adam-Blondon, Francisco J Agosto-Pérez, Michael Alaux, Isabelle Alic, Khaled Al-Shamaa, Johan Steven Aparicio, Jan Erik Backlund, Aldrin Batac, Sebastian Beier, Gabriel Besombes, Alice Boizet, Matthijs Brouwer, Terry Casstevens, Arnaud Charleroy, Keo Corak, Chaney Courtney, Mariano Crimi … The BrAPI Consortium
Database, Volume 2025, 2025, baaf048, https://doi.org/10.1093/database/baaf048
Published: 24 September 2025
Journal Article

FooDrugs: a comprehensive food–drug interactions database with text documents and transcriptional data

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Blanca Lacruz-Pleguezuelos, Oscar Piette, Marco Garranzo, David Pérez-Serrano, Jelena Milešević, Isabel Espinosa-Salinas, Ana Ramírez de Molina, Teresa Laguna, Enrique Carrillo de Santa Pau
Database, Volume 2023, 2023, baad075, https://doi.org/10.1093/database/baad075
Published: 09 November 2023
Journal Article

AI4FoodDB: a database for personalized e-Health nutrition and lifestyle through wearable devices and artificial intelligence

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Sergio Romero-Tapiador, Blanca Lacruz-Pleguezuelos, Ruben Tolosana, Gala Freixer, Roberto Daza, Cristina M Fernández-Díaz, Elena Aguilar-Aguilar, Jorge Fernández-Cabezas, Silvia Cruz-Gil, Susana Molina, Maria Carmen Crespo, Teresa Laguna, Laura Judith Marcos-Zambrano, Ruben Vera-Rodriguez, Julian Fierrez, Ana Ramírez de Molina, Javier Ortega-Garcia, Isabel Espinosa-Salinas, Aythami Morales, Enrique Carrillo de Santa Pau
Database, Volume 2023, 2023, baad049, https://doi.org/10.1093/database/baad049
Published: 18 July 2023
Journal Article

GPCR-PEnDB: a database of protein sequences and derived features to facilitate prediction and classification of G protein-coupled receptors

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Khodeza Begum, Jonathon E Mohl, Fredrick Ayivor, Eder E Perez, Ming-Ying Leung
Database, Volume 2020, 2020, baaa087, https://doi.org/10.1093/database/baaa087
Published: 20 November 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

Effective biomedical document classification for identifying publications relevant to the mouse Gene Expression Database (GXD)

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Xiangying Jiang, Martin Ringwald, Judith Blake, Haggit Shatkay
Database, Volume 2020, 2020, baaa043, https://doi.org/10.1093/database/baaa043
Published: 11 June 2020
Journal Article

Integrating image caption information into biomedical document classification in support of biocuration

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Xiangying Jiang, Pengyuan Li, James Kadin, Judith A Blake, Martin Ringwald, Hagit Shatkay
Database, Volume 2020, 2020, baaa024, https://doi.org/10.1093/database/baaa024
Published: 15 April 2020
Journal Article

Mesophotic.org: a repository for scientific information on mesophotic ecosystems

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Pim Bongaerts, Gonzalo Perez-Rosales, Veronica Z Radice, Gal Eyal, Andrea Gori, Erika Gress, Nicholas M Hammerman, Alejandra Hernandez-Agreda, Jack Laverick, Paul Muir, Hudson Pinheiro, Richard L Pyle, Luiz Rocha, Joseph A Turner, Ryan Booker
Database, Volume 2019, 2019, baz140, https://doi.org/10.1093/database/baz140
Published: 14 December 2019
Journal Article

ResMarkerDB: a database of biomarkers of response to antibody therapy in breast and colorectal cancer

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Judith Pérez-Granado, Janet Piñero, Laura I Furlong
Database, Volume 2019, 2019, baz060, https://doi.org/10.1093/database/baz060
Published: 04 June 2019
Journal Article

YeasTSS: an integrative web database of yeast transcription start sites

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Jonathan McMillan, Zhaolian Lu, Judith S Rodriguez, Tae-Hyuk Ahn, Zhenguo Lin
Database, Volume 2019, 2019, baz048, https://doi.org/10.1093/database/baz048
Published: 26 April 2019
Journal Article

An effective biomedical document classification scheme in support of biocuration: addressing class imbalance

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Xiangying Jiang, Martin Ringwald, Judith A Blake, Cecilia Arighi, Gongbo Zhang, Hagit Shatkay
Database, Volume 2019, 2019, baz045, https://doi.org/10.1093/database/baz045
Published: 25 April 2019
Journal Article

Curating gene sets: challenges and opportunities for integrative analysis

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Jason Bubier, David Hill, Gaurab Mukherjee, Timothy Reynolds, Erich J Baker, Alexander Berger, Jake Emerson, Judith A Blake, Elissa J Chesler
Database, Volume 2019, 2019, baz036, https://doi.org/10.1093/database/baz036
Published: 19 March 2019
Journal Article

SAGE: a comprehensive resource of genetic variants integrating South Asian whole genomes and exomes

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Judith Mary Hariprakash, Shamsudheen Karuthedath Vellarikkal, Ankit Verma, Anop Singh Ranawat, Rijith Jayarajan, Rowmika Ravi, Anoop Kumar, Vishal Dixit, Ambily Sivadas, Atul Kumar Kashyap, Vigneshwar Senthivel, Paras Sehgal, Vijayalakshmi Mahadevan, Vinod Scaria, Sridhar Sivasubbu
Database, Volume 2018, 2018, bay080, https://doi.org/10.1093/database/bay080
Published: 13 September 2018
Journal Article

Collaborative relation annotation and quality analysis in Markyt environment

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Martín Pérez-Pérez, Gael Pérez-Rodríguez, Florentino Fdez-Riverola, Anália Lourenço
Database, Volume 2017, 2017, bax090, https://doi.org/10.1093/database/bax090
Published: 05 December 2017
Journal Article

Text mining and expert curation to develop a database on psychiatric diseases and their genes

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Alba Gutiérrez-Sacristán, Àlex Bravo, Marta Portero-Tresserra, Olga Valverde, Antonio Armario, M.C. Blanco-Gandía, Adriana Farré, Lierni Fernández-Ibarrondo, Francina Fonseca, Jesús Giraldo, Angela Leis, Anna Mané, M.A. Mayer, Sandra Montagud-Romero, Roser Nadal, Jordi Ortiz, Francisco Javier Pavon, Ezequiel Jesús Perez, Marta Rodríguez-Arias … Laura I. Furlong
Database, Volume 2017, 2017, bax043, https://doi.org/10.1093/database/bax043
Published: 26 June 2017
Journal Article

Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis

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Yalbi Itzel Balderas-Martínez, Fabio Rinaldi, Gabriela Contreras, Hilda Solano-Lira, Mishael Sánchez-Pérez, Julio Collado-Vides, Moisés Selman, Annie Pardo
Database, Volume 2017, 2017, bax030, https://doi.org/10.1093/database/bax030
Published: 22 April 2017
Journal Article

Effective biomedical document classification for identifying publications relevant to the mouse Gene Expression Database (GXD)

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Xiangying Jiang, Martin Ringwald, Judith Blake, Hagit Shatkay
Database, Volume 2017, 2017, bax017, https://doi.org/10.1093/database/bax017
Published: 24 March 2017
Journal Article

Construction of antimicrobial peptide-drug combination networks from scientific literature based on a semi-automated curation workflow

Paula Jorge, Martín Pérez-Pérez, Gael Pérez Rodríguez, Florentino Fdez-Riverola, Maria Olívia Pereira, Anália Lourenço
Database, Volume 2016, 2016, baw143, https://doi.org/10.1093/database/baw143
Published: 26 December 2016
Journal Article

Modeling biochemical pathways in the gene ontology

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David P. Hill, Peter D’Eustachio, Tanya Z. Berardini, Christopher J. Mungall, Nikolai Renedo, Judith A. Blake
Database, Volume 2016, 2016, baw126, https://doi.org/10.1093/database/baw126
Published: 01 September 2016