Ernesto Perez-Rueda

Affiliations

Instituto de Investigaciones en Matemáticas Aplicadas y en Sistemas, Universidad Nacional Autonóma de México, Unidad Académica del Estado de Yucatán, Mérida 97302, Yucatán, Mexico.

ORCID: https://orcid.org/0000-0002-6879-0673

Publications (18)

CDBProm: the Comprehensive Directory of Bacterial Promoters.

NAR genomics and bioinformatics

Avec: Gustavo Sganzerla Martinez , Ernesto Perez-Rueda , Anuj Kumar , Mansi Dutt , Cinthia Rodríguez Maya , Leonardo Ledesma-Dominguez , Pedro Lenz Casa , Aditya Kumar , Scheila de Avila E Silva , David J Kelvin

Homology-based reconstruction of regulatory networks for bacterial and archaeal genomes.

Frontiers in microbiology

Avec: Luis Romero , Sebastian Contreras-Riquelme , Manuel Lira , Alberto J M Martin , Ernesto Perez-Rueda

Differential Impact of CD43 and CD28 on T-Cell Differentiation Depending on the Order of Engagement with the TCR.

International journal of molecular sciences

Avec: Monserrat Alba Sandoval-Hernández , Nora Alma Fierro , José Ignacio Veytia-Bucheli , Den Alejandro Alvarado-Velázquez , Estefanía Alemán-Navarro , Erika Melchy-Pérez , Constance Auvynet , Iván Imaz-Rosshandler , Jorge Carneiro , Ernesto Perez-Rueda , Yvonne Rosenstein

Identification of Modules With Similar Gene Regulation and Metabolic Functions Based on Co-expression Data.

Frontiers in molecular biosciences

Avec: Edgardo Galán-Vásquez , Ernesto Perez-Rueda

Prediction of DNA-Binding Transcription Factors in Bacteria and Archaea Genomes.

Methods in molecular biology (Clifton, N.J.)

Avec: Leonardo Ledesma , Rafael Hernandez-Guerrero , Ernesto Perez-Rueda

Identifying similarities at metabolic pathways with a strategy of Enzymatic Step Sequences.

MethodsX

Avec: Augusto Cesar Poot-Hernandez , Katya Rodriguez-Vazquez , Ernesto Perez-Rueda

Exploring the enzymatic repertoires of Bacteria and Archaea and their associations with metabolic maps.

Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology]

Avec: Silvia Tenorio-Salgado , José Luis Villalpando-Aguilar , Rafael Hernandez-Guerrero , Augusto César Poot-Hernández , Ernesto Perez-Rueda

Deciphering the functional diversity of DNA-binding transcription factors in Bacteria and Archaea organisms.

PloS one

Avec: Emanuel Flores-Bautista , Rafael Hernandez-Guerrero , Alejandro Huerta-Saquero , Silvia Tenorio-Salgado , Nancy Rivera-Gomez , Alba Romero , Jose Antonio Ibarra , Ernesto Perez-Rueda

A landscape for drug-target interactions based on network analysis.

PloS one

Avec: Edgardo Galan-Vasquez , Ernesto Perez-Rueda

A Bibliometric Analysis of Mexican Bioinformatics: A Portrait of Actors, Structure, and Dynamics.

Biology

Avec: Dagoberto Armenta-Medina , Christian Díaz de León Castañeda , Alma Armenta-Medina , Ernesto Perez-Rueda

Gene Regulatory Network Inference and Gene Module Regulating Virulence in

Frontiers in microbiology

Avec: Regnier Cano , Alexandre Rafael Lenz , Edgardo Galan-Vasquez , Jorge H Ramirez-Prado , Ernesto Perez-Rueda

DeepReg: a deep learning hybrid model for predicting transcription factors in eukaryotic and prokaryotic genomes.

Scientific reports

Avec: Leonardo Ledesma-Dominguez , Erik Carbajal-Degante , Gabriel Moreno-Hagelsieb , Ernesto Perez-Rueda

Identification of L-asparaginases from

PeerJ

Avec: Iván González-Torres , Ernesto Perez-Rueda , Zahaed Evangelista-Martínez , Andrés Zárate-Romero , Angélica Moreno-Enríquez , Alejandro Huerta-Saquero

Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.

PloS one

Avec: Luis Martinez-Liu , Rafael Hernandez-Guerrero , Nancy Rivera-Gomez , Mario Alberto Martinez-Nuñez , Pedro Escobar-Turriza , Eveline Peeters , Ernesto Perez-Rueda

Analysis of carbohydrate-active enzymes and sugar transporters in Penicillium echinulatum: A genome-wide comparative study of the fungal lignocellulolytic system.

Gene

Avec: Alexandre Rafael Lenz , Eduardo Balbinot , Nikael Souza de Oliveira , Fernanda Pessi de Abreu , Pedro Lenz Casa , Marli Camassola , Ernesto Perez-Rueda , Scheila de Avila E Silva , Aldo José Pinheiro Dillon

Explainable artificial intelligence as a reliable annotator of archaeal promoter regions.

Scientific reports

Avec: Gustavo Sganzerla Martinez , Ernesto Perez-Rueda , Aditya Kumar , Sharmilee Sarkar , Scheila de Avila E Silva

The gene regulatory network of

Frontiers in microbiology

Avec: Maiana de Oliveira Cerqueira E Costa , Ana Paula Barbosa do Nascimento , Yasmmin Cortes Martins , Marcelo Trindade Dos Santos , Agnes Marie de Sá Figueiredo , Ernesto Perez-Rueda , Marisa Fabiana Nicolás

The interaction of InvF-RNAP is mediated by the chaperone SicA in

PeerJ

Avec: André B Farias , Daniel Cortés-Avalos , J Antonio Ibarra , Ernesto Perez-Rueda

Réseau de co-auteurs

Rafael Hernandez-Guerrero 4 collaborations

Scheila de Avila E Silva 3 collaborations

Gustavo Sganzerla Martinez 2 collaborations

Leonardo Ledesma-Dominguez 2 collaborations

Pedro Lenz Casa 2 collaborations

Aditya Kumar 2 collaborations

Silvia Tenorio-Salgado 2 collaborations

Alejandro Huerta-Saquero 2 collaborations

Nancy Rivera-Gomez 2 collaborations

Edgardo Galan-Vasquez 2 collaborations

Alexandre Rafael Lenz 2 collaborations

Anuj Kumar 1 collaboration

Mansi Dutt 1 collaboration

Cinthia Rodríguez Maya 1 collaboration

David J Kelvin 1 collaboration

Luis Romero 1 collaboration

Sebastian Contreras-Riquelme 1 collaboration

Manuel Lira 1 collaboration

Alberto J M Martin 1 collaboration

Monserrat Alba Sandoval-Hernández 1 collaboration

Nora Alma Fierro 1 collaboration

José Ignacio Veytia-Bucheli 1 collaboration

Den Alejandro Alvarado-Velázquez 1 collaboration

Estefanía Alemán-Navarro 1 collaboration

Erika Melchy-Pérez 1 collaboration

Constance Auvynet 1 collaboration

Iván Imaz-Rosshandler 1 collaboration

Jorge Carneiro 1 collaboration

Yvonne Rosenstein 1 collaboration

Edgardo Galán-Vásquez 1 collaboration

Leonardo Ledesma 1 collaboration

Augusto Cesar Poot-Hernandez 1 collaboration

Katya Rodriguez-Vazquez 1 collaboration

José Luis Villalpando-Aguilar 1 collaboration

Augusto César Poot-Hernández 1 collaboration

Emanuel Flores-Bautista 1 collaboration

Alba Romero 1 collaboration

Jose Antonio Ibarra 1 collaboration

Dagoberto Armenta-Medina 1 collaboration

Christian Díaz de León Castañeda 1 collaboration

Alma Armenta-Medina 1 collaboration

Regnier Cano 1 collaboration

Jorge H Ramirez-Prado 1 collaboration

Erik Carbajal-Degante 1 collaboration

Gabriel Moreno-Hagelsieb 1 collaboration

Iván González-Torres 1 collaboration

Zahaed Evangelista-Martínez 1 collaboration

Andrés Zárate-Romero 1 collaboration

Angélica Moreno-Enríquez 1 collaboration

Luis Martinez-Liu 1 collaboration

Mario Alberto Martinez-Nuñez 1 collaboration

Pedro Escobar-Turriza 1 collaboration

Eveline Peeters 1 collaboration

Eduardo Balbinot 1 collaboration

Nikael Souza de Oliveira 1 collaboration

Fernanda Pessi de Abreu 1 collaboration

Marli Camassola 1 collaboration

Aldo José Pinheiro Dillon 1 collaboration

Sharmilee Sarkar 1 collaboration

Maiana de Oliveira Cerqueira E Costa 1 collaboration

Ana Paula Barbosa do Nascimento 1 collaboration

Yasmmin Cortes Martins 1 collaboration

Marcelo Trindade Dos Santos 1 collaboration

Agnes Marie de Sá Figueiredo 1 collaboration

Marisa Fabiana Nicolás 1 collaboration

André B Farias 1 collaboration

Daniel Cortés-Avalos 1 collaboration

J Antonio Ibarra 1 collaboration