DeepReg: a deep learning hybrid model for predicting transcription factors in eukaryotic and prokaryotic genomes von Ledesma-Dominguez, Leonardo, Carbajal-Degante, Erik, Moreno-Hagelsieb, Gabriel, Pérez-Rueda, Ernesto

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Machine learning and statistics shape a novel path in archaeal promoter annotation von Martinez, Gustavo Sganzerla, Pérez-Rueda, Ernesto, Sarkar, Sharmilee, Kumar, Aditya, de Ávila E Silva, Scheila

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A landscape of gene regulation in the parasitic amoebozoa Entamoeba spp von Galán-Vásquez, Edgardo, Gómez-García, María del Consuelo, Pérez-Rueda, Ernesto

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An update of the unceasingly growing and diverse AraC/XylS family of transcriptional activators von Cortés-Avalos, Daniel, Martínez-Pérez, Noemy, Ortiz-Moncada, Mario A, Juárez-González, Aylin, Baños-Vargas, Arturo A, Estrada-de los Santos, Paulina, Pérez-Rueda, Ernesto, Ibarra, J Antonio

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Characterization of promoters in archaeal genomes based on DNA structural parameters von Martinez, Gustavo Sganzerla, Sarkar, Sharmilee, Kumar, Aditya, Pérez‐Rueda, Ernesto, de Avila e Silva, Scheila

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Global analysis of transcriptional regulators in Staphylococcus aureus von Ibarra, Jose Antonio, Pérez-Rueda, Ernesto, Carroll, Ronan K, Shaw, Lindsey N

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Editorial: Insights in evolutionary & genomic microbiology: 2022 von Perez-Rueda, Ernesto, Gao, Feng

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Predicting bacterial transcription factor binding sites through machine learning and structural characterization based on DNA duplex stability von Borges Farias, André, Sganzerla Martinez, Gustavo, Galán-Vásquez, Edgardo, Nicolás, Marisa Fabiana, Pérez-Rueda, Ernesto

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A landscape for drug-target interactions based on network analysis von Galan-Vasquez, Edgardo, Perez-Rueda, Ernesto

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Editorial: Rising stars in Evolutionary and Genomic Microbiology: 2022 von Lapidus, Alla, Perez-Rueda, Ernesto

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Identification and genomic analysis of transcription factors in archaeal genomes exemplifies their functional architecture and evolutionary origin von Pérez-Rueda, Ernesto, Janga, Sarath Chandra

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Genome misclassification of Klebsiella variicola and Klebsiella quasipneumoniae isolated from plants, animals and humans von Martínez-Romero, Esperanza, Rodríguez-Medina, Nadia, Beltrán-Rojel, Marilu, Silva-Sánchez, Jesús, Barrios-Camacho, Humberto, Pérez-Rueda, Ernesto, Garza-Ramos, Ulises

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Identifying Genes Devoted to the Cell Death Process in the Gene Regulatory Network of Ustilago maydis von Soberanes-Gutierrez, Cinthia V., Perez-Rueda, Ernesto, Ruiz-Herrera, Jose, Galan-Vasquez, Edgardo

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The transcriptional activator of the bfp operon in EPEC (PerA) interacts with the RNA polymerase alpha subunit von Lara-Ochoa, Cristina, González-Lara, Fabiola, Romero-González, Luis E., Jaramillo-Rodríguez, Juan B., Vázquez-Arellano, Sergio I., Medrano-López, Abraham, Cedillo-Ramírez, Lilia, Martínez-Laguna, Ygnacio, Girón, Jorge A., Pérez-Rueda, Ernesto, Puente, José Luis, Ibarra, J. Antonio

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In Silico Identification of Chikungunya Virus B- and T-Cell Epitopes with High Antigenic Potential for Vaccine Development von Sanchez-Burgos, Gilma G., Montalvo-Marin, Nallely M., Diaz-Rosado, Edgar R., Perez-Rueda, Ernesto

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Coiled‐coil domains enhance the membrane association of Salmonella type III effectors von Knodler, Leigh A., Ibarra, J. Antonio, Pérez‐Rueda, Ernesto, Yip, Calvin K., Steele‐Mortimer, Olivia

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Editorial: Role of transcription factors and sigma factors in bacterial stress physiology von Perez-Rueda, Ernesto, Schellhorn, Herb E., Kumar, Santosh

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Evaluation of the Abundance of DNA-Binding Transcription Factors in Prokaryotes von Sanchez, Israel, Hernandez-Guerrero, Rafael, Mendez-Monroy, Paul Erick, Martinez-Nunez, Mario Alberto, Ibarra, Jose Antonio, Perez-Rueda, Ernesto

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Abundance, diversity and domain architecture variability in prokaryotic DNA-binding transcription factors von Perez-Rueda, Ernesto, Hernandez-Guerrero, Rafael, Martinez-Nuñez, Mario Alberto, Armenta-Medina, Dagoberto, Sanchez, Israel, Ibarra, J Antonio

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Structure of co-expression networks of Bifidobacterium species in response to human milk oligosaccharides von González-Morelo, Kevin J, Galán-Vásquez, Edgardo, Melis, Felipe, Pérez-Rueda, Ernesto, Garrido, Daniel

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