Julio Collado-Vides
Orcid: 0000-0001-8780-7664
According to our database1,
Julio Collado-Vides
authored at least 53 papers
between 1991 and 2020.
Collaborative distances:
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Bibliography
2020
Knowledge extraction for assisted curation of summaries of bacterial transcription factor properties.
Database J. Biol. Databases Curation, 2020
2019
RegulonDB v 10.5: tackling challenges to unify classic and high throughput knowledge of gene regulation in E. coli K-12.
Nucleic Acids Res., 2019
In the pursuit of semantic similarity for literature on microbial transcriptional regulation.
J. Intell. Fuzzy Syst., 2019
MCO: towards an ontology and unified vocabulary for a framework-based annotation of microbial growth conditions.
Bioinform., 2019
Towards the Prokaryotic Regulation Ontology: An Ontological Model to Infer Gene Regulation Physiology from Mechanisms in Bacteria.
Proceedings of the 11th International Joint Conference on Knowledge Discovery, 2019
2018
Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018), 2018
2017
Nucleic Acids Res., 2017
Database J. Biol. Databases Curation, 2017
Database J. Biol. Databases Curation, 2017
First steps in automatic summarization of transcription factor properties for RegulonDB: classification of sentences about structural domains and regulated processes.
Database J. Biol. Databases Curation, 2017
Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis.
Database J. Biol. Databases Curation, 2017
2016
Nucleic Acids Res., 2016
RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.
Nucleic Acids Res., 2016
2015
An Approach towards Semi-automated Biomedical Literature Curation and Enrichment for a Major Biological Database.
Polibits, 2015
2014
Nucleic Acids Res., 2014
Assisted curation of regulatory interactions and growth conditions of OxyR in <i>E. coli</i> K-12.
Database J. Biol. Databases Curation, 2014
2013
RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.
Nucleic Acids Res., 2013
Nucleic Acids Res., 2013
Evidence classification of high-throughput protocols and confidence integration in RegulonDB.
Database J. Biol. Databases Curation, 2013
2011
Nucleic Acids Res., 2011
RegulonDB version 7.0: transcriptional regulation of <i>Escherichia coli</i> K-12 integrated within genetic sensory response units (Gensor Units).
Nucleic Acids Res., 2011
2009
Nucleic Acids Res., 2009
2008
RegulonDB (version 6.0): gene regulation model of <i>Escherichia coli</i> K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation.
Nucleic Acids Res., 2008
BMC Bioinform., 2008
2007
PLoS Comput. Biol., 2007
PLoS Comput. Biol., 2007
Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes.
Nucleic Acids Res., 2007
Automatic reconstruction of a bacterial regulatory network using Natural Language Processing.
BMC Bioinform., 2007
Proceedings of the Computational Linguistics and Intelligent Text Processing, 2007
2006
RegulonDB (version 5.0): <i>Escherichia coli</i> K-12 transcriptional regulatory network, operon organization, and growth conditions.
Nucleic Acids Res., 2006
BMC Bioinform., 2006
Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006
2005
Nucleic Acids Res., 2005
Nucleic Acids Res., 2005
2004
RegulonDB (version 4.0): transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12.
Nucleic Acids Res., 2004
Complementing computationally predicted regulatory sites in Tractor_DB using a pattern matching approach.
Silico Biol., 2004
Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea.
Comput. Biol. Chem., 2004
04281 Abstracts Collection - Integrative Bioinformatics - Aspects of the Virtual Cell.
Proceedings of the Integrative Bioinformatics - Aspects of the Virtual Cell, 04.07., 2004
2002
Operon conservation from the point of view of Escherichia coli, and inference of functional inter-dependence of gene products from genome context.
Silico Biol., 2002
A powerful non-homology method for the prediction of operons in prokaryotes.
Proceedings of the Tenth International Conference on Intelligent Systems for Molecular Biology, 2002
Genomics of Gene Regulation: The View from Escherichia coli.
Proceedings of the Gene Regulations and Metabolism - Postgenomic Computational Approaches, 2002
2001
RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12.
Nucleic Acids Res., 2001
2000
RegulonDB (version 3.0): transcriptional regulation and operon organization in Escherichia coli K-12.
Nucleic Acids Res., 2000
1999
RegulonDB (version 2.0): a database on transcriptional regulation in Escherichia coli.
Nucleic Acids Res., 1999
1998
Nucleic Acids Res., 1998
Prediction of transcriptional regulatory sites in the complete genome sequence of Escherichia coli K-12.
Bioinform., 1998
1996
Comput. Appl. Biosci., 1996
Three Models of Gene Regulation in E.coli.
Proceedings of the German Conference on Bioinformatics, 1996
Proceedings of the Bioinformatics, German Conference on Bioinformatics, Leipzig, 1996
1991
The search for a grammatical theory of gene regulation is formally justified by showing the inadequacy of context-free grammars.
Comput. Appl. Biosci., 1991