Credits

This page summarizes the different contributors to the RegulonDB project.
 

• Dr. Julio Collado Vides. Project Leader.

Biocuration Team

• Mc. Socorro Gama Castro
• Dr. Paloma Lara
• Dr. Victor Tierrafria

Software and Infrastructure Team

• Heladia Salgado Osorio (Project manager)
• Luis José Muñiz Rascado (Database administrator)
• Jair García Sotelo (Developer - partial time)
• Shirley Alquicira Hernández (Developer - partial time)
• Víctor del Moral Chávez (Manager of information technology infrastructure - partial time)
• César Bonavides Martínez (Information technology assistant - partial time)

Our data Contributors

Experimental and curated datasets

• Each release RegulonDB updates data on functional annotation and coordinates of genes and functional annotation of products from EcoCyc database.
• The active and inactive Transcription Factor Conformations were provided by Dr. Yalbi Balderas Martínez (PMID:23776535).
• The Transcription Factor families came from our collaborator Dr. Ernesto Pérez Rueda (PMID: 26094112).
• The classification of the regulatory network of E.coli in different systems of sensing came from our collaborator Dr. Agustino Martínez (PMID: 16311037).
• A set of promoters with evidence "High-throughput transcription initiation mapping" wee provided by the laboratory of Dr. Enrique Morett.
• The small RNA curated dataset is mantained by Dr. Irma Martínez Flores.
• The coexpression matrix of genes and the coexpresion browser is a contribution of Lucie Pannier.

Computational Predictions

• The transcription factor binding site (TFBSs) predictions, the transcription factor weight matrix datasets and the TFBSs evolutionary conservation were and have been updated by Dr. Alejandra Medina Rivera (PMID: 20923783).
• The promoter predictions and the promoter evolutionary conservation come from Dr. Araceli Huerta Moreno (PMID: 14529615).
• Operon predictions come from our collaborator Dr. Gabriel Moreno Hagelsieb (PMID:12169563).
• The set of transcriptional attenuators in E. coli comes from Dr. Enrique Merino (PMID:15851059).
• A set of predicted riboswitches ( RNA sequence that can adopt two structural arrangements, one of which has a transcription terminator or inhibitor of translation initiation) were provided by Dr. Cei Abreu.

Our tool Collaborators

• The cluster analysis of PWMs and the Transcription Factor Family Browser was provided by Jaime Castro Mondragon.
• The tool that integrates metabolism and transcriptional regulation of transcription factors called gensor unit was developed by Daniela Ledezma.

External Collaborators

• Dr. Ingrid Keseler (SRI International)

Advisors in Gene Regulation

The advisors contribute to supervise the quality of the data curated into the database, and help to adress specific issues of their expertise.

• Dr. Steve Busby (University of Birgminham, UK)
• Dr. Jacques van Helden (Aix-Marseille Université, France)
• Dr. Rick Gourse (University of Wisconsin)

PAST contributors

Past Advisors in Gene Regulation

• Dr. Rob Gunsalus (University of California, Los Angeles)
• Dr. Jim Hu (Texas A&M University)
• Dr. Sankar Adhya (National Institute of Health)
• Dr. Enrique Merino (Biotechnology Institute, UNAM, Mexico)
• Dr. Jay Gralla (UCLA)
• Dr. Tyrrell Conway (Advanced Center for Genome Technology, Oklahoma University)

Past Biocurators

• Dr. Martín Peralta Gil
• Dr. Verena Weiss
• Dr. Irma Martínez Flores
• Mónica Peñaloza Spínola
• Mc. Alberto Santos Zavaleta
• M.Sc. David A. Velázquez-Ramírez
• Dr. Ma. Cecilia Ishida G.
• Mc. Sara Martínez Luna
• M.Sc. José Manuel Camacho-Zaragoza

Past Developers

• Mc. Verónica Jiménez Jacinto
• Dr. Bruno Contreras Moreira
• Dr. Juan Segura Salazar
• Kevin Alquicira Hernández (Developer - partial time)
• Hilda Solano Lira (Developer - partial time)
• Liliana Porrón Sotelo
• Gerardo Salgado Osorio
• Ruth Adame Martínez

Past Collaborators

• Dr. Luis Gerardo Treviño
• Dr. Rosa María Gutierrez Ríos
• Dr. Agustino Martínez Antonio
• Dr. Sarath Chandra Janga
• Dr. Denis Thieffry

Last Update: 09 June 2016