Heladia Salgado Osorio

Computational Genomics Laboratory Technician

Laboratory Technician

Academic history

Links

Scopus

Telephone: (777) 3132063
Email: heladia@ccg.unam.mx

Publications

YearPublicationPMID
2017Perez-Morales, Deyanira, Banda, Maria M., Elizabeth Chau, N. Y., Salgado, Heladia, Martinez-Flores, Irma, Antonio Ibarra, J., Ilyas, Bushra, Coombes, Brian K. and Bustamante, Victor H.. (2017). "The transcriptional regulator SsrB is involved in a molecular switch controlling virulence lifestyles of Salmonella". PLOS PATHOGENS. 13(7):e1006497-. [doi:10.1371/journal.ppat.1006497]28704543
2016Gama-Castro, S., Salgado, H., Santos-Zavaleta, A., Ledezma-Tejeida, D., Muñiz-Rascado, L., García-Sotelo, J.S., Alquicira-Hernández, K., Martínez-Flores, I., Pannier, L., Castro-Mondragón, J.A., Medina-Rivera, A., Solano-Lira, H., Bonavides-Martínez, C., Pérez-Rueda, E., Alquicira-Hernández, S., Porrón-Sotelo, L., López-Fuentes, A., Hernández-Koutoucheva, A., Del Moral-Chavez, V., Rinaldi, F. and Collado-Vides, J.. (2016). "RegulonDB version 9.0: High-level integration of gene regulation, coexpression, motif clustering and beyond". Nucleic Acids Research. 44(D1):133-143. [doi:10.1093/nar/gkv1156]26527724
2014Martinez, L.C., Martínez Flores, Irma, Salgado Osorio, Heladia, Fernández-Mora, M., Medina Rivera, Alejandra Eugenia, Puente, J.L., Collado-Vides, J. and Bustamante, V.H.. (2014). "In Silico identification and experimental characterization of regulatory elements controlling the expression of the Salmonella csrB and csrC genes". Journal Of Bacteriology. 196(2):325-336. [doi:10.1128/JB.00806-13]24187088
2013Balderas MartÍnez, Yalbi Itzel, Savageau, M., Salgado Osorio, Heladia, Pérez-Rueda, E, Morett, E. and Collado-Vides, J.. (2013). "Transcription Factors in Escherichia coli Prefer the holo Conformation". Plos One. 8(6):e65723-. [doi:10.1371/journal.pone.0065723]23776535
2013Weiss, V., Medina-Rivera, A, Huerta, AM, Santos-Zavaleta, A, Salgado, H, Morett, E. and Collado-Vides, J.. (2013). "Evidence classification of high-throughput protocols and confidence integration in RegulonDB". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2013():bas059-. [doi:10.1093/database/bas059]23327937
2013Salgado Osorio, Heladia, Peralta Gil, Martín, Gama Castro, MA. DEL SOCORRO, Santos Zavaleta, Alberto, Muñíz Rascado, Luis José, Garcia Sotelo, Jair Santiago, Weiss, V., Solano Lira, Hilda, Martínez Flores, Irma, Medina Rivera, Alejandra Eugenia, Salgado Osorio, Gerardo, Alquicira Hernández, Shirley, Alquicira Hernández, Kevin, López Fuentes, Alejandra Cristina, Porrón Sotelo, Liliana, Huerta Moreno, Araceli, Bonavides Martínez, César Augusto, Balderas MartÍnez, Yalbi Itzel, Pannier, Lucia, Olvera, M., Labastida, A., Jiménez-Jacinto, V., Vega-Alvarado, L., del Moral Chávez, Victor Manuel, Hernández Álvarez, Alfredo José, Morett, E. and Collado-Vides, J.. (2013). "RegulonDB v8.0: Omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more". Nucleic Acids Research. 41(D1):203-213. [doi:10.1093/nar/gks1201]23203884
2012Pauling, J., Rottger, R., Neuner, A., Salgado Osorio, Heladia, Collado-Vides, J., Kalaghatgi, P., Azevedo, V., Tauch, A., Puhlerg, A. and Baumbach, J.. (2012). "On the trail of EHEC/EAEC - Unraveling the gene regulatory networks of human pathogenic Escherichia coli bacteria". Integrative Biology. 4(7):728-733. [doi:10.1039/c2ib00132b]22318347
2011Medina Rivera, Alejandra Eugenia, Abreu-Goodger, C., Thomas-Chollier, M., Salgado Osorio, Heladia, Collado-Vides, J. and Van Helden, J.. (2011). "Theoretical and empirical quality assessment of transcription factor-binding motifs". Nucleic Acids Research. 39(3):808-824. [doi:10.1093/nar/gkq710]20923783
2011Salgado Osorio, Heladia, Martínez Flores, Irma, López Fuentes, Alejandra Cristina, Garcia Sotelo, Jair Santiago, Porrón Sotelo, Liliana, Muñíz Rascado, Luis José and Collado-Vides, J.. (2011). "Extracting regulatory networks of/Escherichia coli/from RegulonDB". Bacterial Molecular Networks: Methods and Protocols. ():-.
2011Gama Castro, MA. DEL SOCORRO, Salgado Osorio, Heladia, Peralta Gil, Martín, Santos Zavaleta, Alberto, Muñíz Rascado, Luis José, Solano Lira, Hilda, Jimenez-Jacinto, V., Weiss, V., Garcia Sotelo, Jair Santiago, López Fuentes, Alejandra Cristina, Porrón Sotelo, Liliana, Alquicira Hernández, Shirley, Medina Rivera, Alejandra Eugenia, Martínez Flores, Irma, Alquicira Hernández, Kevin, Martínez Adame, Ruth, Bonavides Martínez, César Augusto, Miranda-Ríos, J., Huerta Moreno, Araceli, Mendoza-Vargas, A., Collado Torres, Leonardo, Taboada, B., Vega-Alvarado, L., Olvera, M., Olvera, L., Grande, R., Morett, E. and Collado-Vides, J.. (2011). "RegulonDB version 7.0: Transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)". Nucleic Acids Research. 39(SUPPL. 1):98-105. [doi:10.1093/nar/gkq1110]21051347
2010Salgado Osorio, Heladia, López Fuentes, Alejandra Cristina, Martínez Flores, Irma, Garcia Sotelo, Jair Santiago, Porrón Sotelo, Liliana, Solano Lira, Hilda, Muñíz Rascado, Luis José and Collado-Vides, J.. (2010). "Extracting regulatory networks of Escherichia coli from RegulonDB". Bacterial Molecular Networks: Methods and Protocols. ():-.
2009Janga, Sarath Chandra, Salgado, Heladia and Martinez-Antonio, Agustino. (2009). "Transcriptional regulation shapes the organization of genes on bacterial chromosomes". Nucleic Acids Research. 37(11):3680-3688. [doi:10.1093/nar/gkp231]19372274
2009Collado-Vides, J., Salgado, Heladia, Morett, Enrique, Gama-Castro, Socorro, Jimenez-Jacinto, Veronica, Martinez-Flores, Irma, Medina-Rivera, Alejandra, Muniz-Rascado, Luis, Peralta-Gil, Martin and Santos-Zavaleta, Alberto. (2009). "Bioinformatics resources for the study of gene regulation in bacteria". Journal Of Bacteriology. 91(1):23-31. [doi:10.1128/JB.01017-08]18978060
2008Hernandez-Romano, Jesus, Carlos-Rivera, Francisco J., Salgado, Heladia, Lamadrid-Figueroa, Hector, Valverde-Garduno, Veronica, Rodriguez, Mario H. and Martinez-Barnetche, Jesus. (2008). "Immunity related genes in dipterans share common enrichment of AT-rich motifs in their 5' regulatory regions that are potentially involved in nucleosome formation". Bmc Genomics. 9():326-326. [doi:10.1186/1471-2164-9-326]18613977
2008Hernandez-Lucas, I., Gallego-Hernandez, A. L., Encarnacion, S., Fernandez-Mora, M., Martinez-Batallar, A. G., Salgado, H., Oropeza, R. and Calva, E.. (2008). "The LysR-type transcriptional regulator LeuO controls expression of several genes in Salmonella enterica serovar typhi". Journal Of Bacteriology. 190(5):1658-1670. [doi:10.1128/JB.01649-07]18156266
2008Gama Castro, MA. DEL SOCORRO, Jiménez Jacinto, Verónica, Peralta Gil, Martín, Santos Zavaleta, Alberto, Peñaloza Spinola, Mónica Ivonne, Contreras Moreira, Bruno, Segura Salazar, Juan, Muñíz Rascado, Luis José, Martínez Flores, Irma, Salgado Osorio, Heladia, Bonavides Martínez, César Augusto, Abreu Goodger, Cei Leander Gastón, Rodríguez Penagos, Carlos, Miranda-Ríos, J., Morett Sánchez, Juan Enrique, Merino, E., Huerta Moreno, Araceli, Treviño Quintanilla, Luis Gerardo and Collado-Vides, J.. (2008). "RegulonDB (version 6.0): Gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation". Nucleic Acids Research. 36(SUPPL. 1):120-124. [doi:10.1093/nar/gkm994]18158297
2007Rodríguez Penagos, Carlos, Salgado Osorio, Heladia, Martínez Flores, Irma and Collado-Vides, J.. (2007). "Automatic reconstruction of a bacterial regulatory network using Natural Language Processing". Bmc Bioinformatics. 8():293-293. [doi:10.1186/1471-2105-8-293]17683642
2007Janga, Sarath Chandra, Salgado Osorio, Heladia, Martínez Antonio, Agustino and Collado-Vides, J.. (2007). "Coordination logic of the sensing machinery in the transcriptional regulatory network of Escherichia coli". Nucleic Acids Research. 35(20):6963-6972. [doi:10.1093/nar/gkm743]17933780
2007Rodríguez Penagos, Carlos, Martínez Flores, Irma, Salgado Osorio, Heladia and Collado-Vides, J.. (2007). "NLP-based curation of bacterial regulatory networks". Computational Linguistics And Intelligent Text Processing. 4394():575-.
2007Rodríguez Penagos, Carlos, Salgado Osorio, Heladia, Martínez Flores, Irma and Collado-Vides, J.. (2007). "NLP-Based Curation of Bacterial Regulatory Networks". CICLing. ():575-586.
2006Salgado Osorio, Heladia, Santos Zavaleta, Alberto, Gama Castro, MA. DEL SOCORRO, Peralta Gil, Martín, Peñaloza Spinola, Mónica Ivonne, Martínez Antonio, Agustino, Karp, P.D. and Collado-Vides, J.. (2006). "The comprehensive updated regulatory network of Escherichia coli K-12". Bmc Bioinformatics. 7():5-5. [doi:10.1186/1471-2105-7-5]16398937
2006Martínez Antonio, Agustino, Janga, Sarath Chandra, Salgado Osorio, Heladia and Collado-Vides, J.. (2006). "Internal-sensing machinery directs the activity of the regulatory network in Escherichia coli". TRENDS IN MICROBIOLOGY. 14(1):22-27. [doi:10.1016/j.tim.2005.11.002]16311037
2006Salgado Osorio, Heladia, Gama Castro, MA. DEL SOCORRO, Peralta Gil, Martín, Díaz Peredo, Edgar Ulises, Sánchez Solano, Erika Fabiola, Santos Zavaleta, Alberto, Martínez Flores, Irma, Jiménez Jacinto, Verónica, Bonavides Martínez, César Augusto, Segura Salazar, Juan, Martínez Antonio, Agustino and Collado-Vides, J.. (2006). "RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions.". Nucleic Acids Research. 34(Database issue):394-397. [doi:10.1093/nar/gkj156]16381895
2004Salgado Osorio, Heladia, Gama Castro, MA. DEL SOCORRO, Martínez Antonio, Agustino, Díaz Peredo, Edgar Ulises, Sánchez Solano, Erika Fabiola, Peralta Gil, Martín, García Alonso, Delfino, Jiménez Jacinto, Verónica, Santos Zavaleta, Alberto, Bonavides Martínez, César Augusto and Collado-Vides, J.. (2004). "RegulonDB (version 4.0): Transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12". Nucleic Acids Research. 32(DATABASE ISS.):303-306. [doi:10.1093/nar/gkh140]14681419
2003González, V., Bustos Arcos, Virginia Patricia, Ramírez Romero, Miguel Ángel, Medrano Soto, Luis Arturo, Salgado Osorio, Heladia, Hernández González, Ismael Luis, Hernández Celis, Juan Carlos, Quintero Hernández, Verónica, Moreno Hagelsieb, Gabriel, Girard, L., Rodríguez Sánchez, Oscar, Flores López, Margarita, Cevallos, M.A., Collado-Vides, J., Romero, D. and Dávila Ramos, José Guillermo. (2003). "The mosaic structure of the symbiotic plasmid of Rhizobium etli CFN42 and its relation to other symbiotic genome compartments.". Genome Biology. 4(6):R36-. [doi:10.1186/gb-2003-4-6-r36]12801410
2001Salgado, H, Santos-Zavaleta, A, Gama-Castro, S, Millen-Zarate, D, Diaz-Peredo, E, Sanchez-Solano, F, Pérez-Rueda, E, Bonavides-Martinez, C and Collado-Vides, J.. (2001). "RegulonDB (version 3.2): Transcriptional regulation and operon organization in Escherichia coli K-12". Nucleic Acids Research. 29(1):72-74. [doi:10.1093/nar/29.1.72]11125053
2000Salgado Osorio, Heladia, Moreno Hagelsieb, Gabriel, Smith, T.F. and Collado-Vides, J.. (2000). "Operons in Escherichia coli: Genomic analyses and predictions". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 97(12):6652-6657. [doi:10.1073/pnas.110147297]10823905
2000Salgado, H, Santos-Zavaleta, A, Gama-Castro, S, Millan-Zarate, D, Blattner, FR and Collado-Vides, J.. (2000). "RegulonDB (version 3.0): Transcriptional regulation and operon organization in Escherichia coli K-12". Nucleic Acids Research. 28(1):65-67. [doi:10.1093/nar/28.1.65]10592182
1999Salgado, H, Santos, A, Garza-Ramos, U, van Helden, J, Diaz, E and Collado-Vides, J.. (1999). "RegulonDB (version 2.0): A database on transcriptional regulation in Escherichia coli". Nucleic Acids Research. 27(1):59-60. [doi:10.1093/nar/27.1.59]9847141
1998Thieffry, D, Salgado, H, Huerta, AM and Collado-Vides, J.. (1998). "Prediction of transcriptional regulatory sites in the complete genome sequence of Escherichia coli K-12". Bioinformatics. 14(5):391-400. [doi:10.1093/bioinformatics/14.5.391]9682052
1998Huerta, AM, Salgado, H, Thieffry, D and Collado-Vides, J.. (1998). "RegulonDB: A database on transcriptional regulation in Escherichia coli". Nucleic Acids Research. 26(1):55-59. [doi:10.1093/nar/26.1.55]9399800
1997Thieffry Jacot-Descombes, Denis Louis, Rosenblueth, D.A., Huerta Moreno, Araceli, Salgado Osorio, Heladia and Collado-Vides, J.. (1997). "Definite-clause grammars for the analysis of CIS-regulatory regions in E. coli.". Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. ():441-452. 9390313
1996Rosenblueth, DA, Thieffry, D, Huerta, AM, Salgado, H and Collado-Vides, J.. (1996). "Syntactic recognition of regulatory regions in Escherichia coli". COMPUTER APPLICATIONS IN THE BIOSCIENCES. 12(5):415-422. 8996790
2018Santos-Zavaleta, Alberto, Sanchez-Perez, Mishael, Salgado, Heladia, Velazquez-Ramirez, David A., Gama-Castro, Socorro, Tierrafria, Victor H., Busby, Stephen J. W., Aquino, Patricia, Fang, Xin, Palsson, Bernhard O., Galagan, James E. and Collado-Vides, J.. (2018). "A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0". BMC BIOL. 16(1):91-91. [doi:10.1186/s12915-018-0555-y]30115066
2003Martínez Antonio, Agustino, Salgado Osorio, Heladia, Gama Castro, MA. DEL SOCORRO, Gutiérrez Ríos, Rosa María, Jiménez Jacinto, Verónica and Collado-Vides, J.. (2003). "Environmental Conditions and Transcriptional Regulation in Escherichia coli: A Physiological Integrative Approach". BIOTECHNOLOGY AND BIOENGINEERING. 84(7):743-749. [doi:10.1002/bit.10846]14708114
2004Oviedo, N.A., Salgado Osorio, Heladia, Collado-Vides, J. and Guarneros, G.. (2004). "Distribution of minigenes in the bacteriophage lambda chromosome". Gene. 329(1-2):115-124. [doi:10.1016/j.gene.2003.12.031]15033534
2007Janga, Sarath Chandra, Salgado Osorio, Heladia, Collado-Vides, J. and Martínez Antonio, Agustino. (2007). "Internal Versus External Effector and Transcription Factor Gene Pairs Differ in Their Relative Chromosomal Position in Escherichia coli". Journal Of Molecular Biology. 368(1):263-272. [doi:10.1016/j.jmb.2007.01.019]17321548
2007Salgado, Heladia, Martinez-Antonio, Agustino and Janga, Sarath Chandra. (2007). "Conservation of transcriptional sensing systems in prokaryotes: A perspective from Escherichia coli". FEBS LETTERS. 581(18):3499-3506. [doi:10.1016/j.febslet.2007.06.059]17617412
2007Rodríguez-Penagos, C., Salgado, H., Martínez-Flores, I. and Collado-Vides, J.. (2007). "NLP-based curation of bacterial regulatory networks". LECT NOTES COMPUT SC. 4394 LNCS():575-586.
2009Mendoza-Vargas, Alfredo, Olvera, Leticia, Olvera, Maricela, Grande, Ricardo, Vega-Alvarado, Leticia, Taboada, Blanca, Jimenez-Jacinto, Veronica, Salgado, Heladia, Juarez, Katy, Contreras-Moreira, Bruno, Huerta, Araceli M., Collado-Vides, J. and Morett, Enrique. (2009). "Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli". Plos One. 4(10):e7526-. [doi:10.1371/journal.pone.0007526]19838305
2012Salgado Osorio, Heladia, Martínez Flores, Irma, López Fuentes, Alejandra Cristina, Garcia Sotelo, Jair Santiago, Porrón Sotelo, Liliana, Muñíz Rascado, Luis José and Collado-Vides, J.. (2012). "Extracting regulatory networks of Escherichia coli from RegulonDB". Methods in Molecular Biology. 804():179-195. [doi:10.1007/978-1-61779-361-5_10]22144154
2016Martínez-Flores I, Pérez-Morales D, Sánchez-Pérez M, Paredes CC, Collado-Vides, J., Salgado H and Bustamante VH. (2016). "In Silico clustering of Salmonella global gene expression data reveals novel genes co-regulated with the SPI-1 virulence genes through HilD". SCIENTIFIC REPORTS. 6():37858-37858. [doi:10.1038/srep37858]27886269
1970Tierrafría VH, Mejía-Almonte C, Camacho-Zaragoza JM, Salgado H, Alquicira K, Gama-Castro S, Ishida C and Collado-Vides, J.. (1970). "MCO: towards an ontology and unified vocabulary for a framework-based annotation of microbial growth conditions.". Bioinformatics. ():-. [doi:10.1093/bioinformatics/bty689]30137210