2026 Julio Collado-Vides: Genetics Researcher – H-Index, Publications & Awards

Discipline name	D-Index	World Ranking	Current World Ranking	National Ranking	Current National Ranking	Publications	Citations
Genetics	66	2568	2435	1	1	167	31194

Research.com Recognitions

2015 - Fellow of the International Society for Computational Biology
1992 - Fellow of John Simon Guggenheim Memorial Foundation

Overview

Julio Collado-Vides is affiliated with the National Autonomous University of Mexico in Mexico. Their research primarily focuses on the fields of Biochemistry, Genetics and Molecular Biology, with 44 publications recorded. Within these areas, specific subfields explored include Molecular Biology, Genetics, Pulmonary and Respiratory Medicine, Artificial Intelligence, and Information Systems and Management.

The scientist has contributed to various main topics, which include:

Genomics and Phylogenetic Studies
Bacterial Genetics and Biotechnology
RNA and protein synthesis mechanisms
Gene Regulatory Network Analysis
Biomedical Text Mining and Ontologies
Microbial Metabolic Engineering and Bioproduction
Bioinformatics and Genomic Networks

Julio Collado-Vides has published extensively with frequent appearances in venues such as:

bioRxiv (Cold Spring Harbor Laboratory)
Nature Reviews Genetics
EcoSal Plus
Zenodo (CERN European Organization for Nuclear Research)
Frontiers in Microbiology

Selected recent publications include:

The EcoCyc Database in 2021 (2021) in Frontiers in Microbiology
Redefining fundamental concepts of transcription initiation in bacteria (2020) in Nature Reviews Genetics
RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-12 (2022) in Microbial Genomics
The EcoCyc Database (2023) in EcoSal Plus
RegulonDB v12.0: a comprehensive resource of transcriptional regulation in E. coli K-12 (2023) in Nucleic Acids Research

Frequent co-authors collaborating with Julio Collado-Vides include:

Socorro Gama-Castro
Víctor H. Tierrafría
César Bonavides-Martínez
Luis Muñiz-Rascado
Paloma Lara

The scientist has received recognition such as:

Fellow of the International Society for Computational Biology (2015)
Fellow of John Simon Guggenheim Memorial Foundation (1992)

Best Publications

The Complete Genome Sequence of Escherichia coli K-12

Frederick R. Blattner;Guy Plunkett;Craig A. Bloch;Nicole T. Perna

9781
Citations
Extracting Regulatory Sites from the Upstream Region of Yeast Genes by Computational Analysis of Oligonucleotide Frequencies

J. van Helden;B. André;J. Collado-Vides

1025
Citations
EcoCyc: a comprehensive database resource for Escherichia coli

Ingrid M. Keseler;Julio Collado-Vides;Socorro Gama-Castro;John Ingraham

973
Citations
The BioPAX community standard for pathway data sharing

Emek Demir;Emek Demir;Michael P. Cary;Suzanne Paley;Ken Fukuda

825
Citations
EcoCyc: fusing model organism databases with systems biology

Ingrid M. Keseler;Amanda Mackie;Martín Peralta-Gil;Alberto Santos-Zavaleta

736
Citations
Minimum information requested in the annotation of biochemical models (MIRIAM)

Nicolas Le Novère;Andrew Finney;Michael Hucka;Upinder S. Bhalla

736
Citations
Control site location and transcriptional regulation in Escherichia coli.

J Collado-Vides;B Magasanik;J D Gralla

690
Citations
From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coli

Denis Thieffry;Araceli M. Huerta;Ernesto Pérez-Rueda;Julio Collado-Vides

666
Citations
Identifying global regulators in transcriptional regulatory networks in bacteria.

Agustino Martı́nez-Antonio;Julio Collado-Vides

654
Citations
The EcoCyc Database

Peter D. Karp;Monica Riley;Milton Saier;Ian T. Paulsen

647
Citations
RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation

Socorro Gama-Castro;Verónica Jiménez-Jacinto;Martin Peralta-Gil;Alberto Santos-Zavaleta

631
Citations
EcoCyc: a comprehensive database of Escherichia coli biology

Ingrid M. Keseler;Julio Collado-Vides;Alberto Santos-Zavaleta;Martín Peralta-Gil

630
Citations
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.

Ingrid M. Keseler;Amanda Mackie;Alberto Santos-Zavaleta;Richard Billington

628
Citations
RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond

Socorro Gama-Castro;Heladia Salgado;Alberto Santos-Zavaleta;Daniela Ledezma-Tejeida

540
Citations
RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more

Heladia Salgado;Martín Peralta-Gil;Socorro Gama-Castro;Alberto Santos-Zavaleta

519
Citations
Operons in Escherichia coli: genomic analyses and predictions.

Heladia Salgado;Gabriel Moreno-Hagelsieb;Temple F. Smith;Julio Collado-Vides

492
Citations
RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions

Heladia Salgado;Socorro Gama-Castro;Martín Peralta-Gil;Edgar Díaz-Peredo

483
Citations
EcoCyc: A comprehensive view of Escherichia coli biology

Ingrid M. Keseler;César Bonavides-Martínez;Julio Collado-Vides;Socorro Gama-Castro

476
Citations
RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)

Socorro Gama-Castro;Heladia Salgado;Martin Peralta-Gil;Alberto Santos-Zavaleta

476
Citations
Discovering regulatory elements in non-coding sequences by analysis of spaced dyads

Jacques van Helden;Alma. F. Rios;Julio Collado-Vides

448
Citations

Frequent Co-Authors

Peter D. Karp SRI International

Suzanne M. Paley SRI International

Ian T. Paulsen Macquarie University

Jacques van Helden Aix-Marseille University

Ana Tereza Ribeiro de Vasconcelos National Laboratory of Scientific Computing

Denis Thieffry École Normale Supérieure

Bernhard O. Palsson University of California, San Diego

Frederick R. Blattner University of Wisconsin–Madison

Kathleen Marchal Ghent University

James E. Galagan Boston University

External Links

Wikipedia of Julio Collado-Vides Personal website of Julio Collado-Vides

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