Genómica Computacional

El Programa de Genómica Computacional se dedica, en el ámbito de la bioinformática, al reto de acelerar el acceso al conocimiento genómico, en particular sobre la regulación de la expresión genética microbiana. La columna vertebral es el diseño y expansión de la base de datos RegulonDB, con conocimiento extraído por curadores de la regulación genética en Escherichia coli K-12, tanto de experimentos clásicos como con métodos masivos post-genómicos. Trabajamos algoritmos para la identificación de sitios de pegado, promotores y unidades de transcripción, así como de co-regulación, y para el procesamiento de datos de experimentos masivos tipo ChIP-seq, entre otros. Trabajamos en una ontología y vocabulario controlado de condiciones de crecimiento microbiano, y en una ontología de la regulación genética microbiana. Una vertiente importante es el uso de procesamiento de lenguaje natural (NLP) para enriquecer las estrategias de extracción del conocimiento lo que nos permite expandir la curación a otras bacterias como Salmonella, y otras cuantas bacterias. Hemos sustentado conceptos integrativos como el de frases de regulación y más recientemente el de unidades genético-metabólicas de sensado-respuesta (GENSOR Units), las cuales plantean una gran cantidad de preguntas nuevas. Estamos indagando el formalismo de S-systems de Michael Savageau para el modelaje, inicialmente, de GENSOR Units; ampliándolo a circuitos completos y, si es posible, a un modelaje integral de la célula a nivel molecular. Esto con un enfoque novedoso de geometría algebraica computacional.
Toda esta forma de ver y concebir el conocimiento científico tiene su aplicación con estrategias semejantes en un proyecto que busca romper la separación entre divulgación y comunicación entre expertos, en el proyecto Conogasi (conogasi.org).

Académicos del Grupo

NombrePuestoCategoríaCorreoTeléfono
Pedro Julio Collado VidesInvestigadorInv. Tit. C T.C. Definitivocollado@ccg.unam.mx(777) 3139877
César Augusto Bonavides MartínezTécnico AcadémicoTec. Acad. Tit. C T.C. Definitivocbona18@ccg.unam.mx(777) 3132063
Ma. del Socorro Gama CastroTécnico AcadémicoTec. Acad. Tit. C T.C. Definitivosgama@ccg.unam.mx(777) 3132063
Heladia Salgado OsorioTécnico AcadémicoTec. Acad. Tit. C T.C. Definitivoheladia@ccg.unam.mx(777) 3132063
Victor Manuel del Moral ChávezTécnico AcadémicoTec. Acad. Tit. A T.C. Obra Det.victor@ccg.unam.mx(777) 3132063
Delfino García AlonsoTécnico AcadémicoTec. Acad. Tit. A T.C. Obra Det.delfinog@ccg.unam.mx(777) 3132063
Carlos Francisco Méndez CruzInvestigadorInv. Asoc. C T.C. Obra Det.cmendezc@ccg.unam.mx(777) 3132063
Kevin Alquicira HernándezTécnico por honorariosCONACYTkevin@ccg.unam.mx(777) 3132063
Shirley Alquicira HernándezTécnico por honorariosCONACYTalquicir@ccg.unam.mx(777) 3132063
Marco Polo Castillo VillalbaTécnico por honorariosOtromarcopol@ccg.unam.mx(777) 3132063
Martin Jair Díaz RodríguezTécnico por honorariosOtromjdiaz@ccg.unam.mx(777) 3132063
Francisco de Jesus Guadarrama GarcíaTécnico por honorariosOtrofranguad@ccg.unam.mx(777) 3132063
Jose Daniel Gutierrez NietoTécnico por honorariosOtrodanezoj@gmail.com(777) 3132063
Aldo Hernández CorchadoTécnico por honorariosOtroaldohernandezcorchado@gmail.com(777) 3132063
Maria Cecilia Ishida GutiérrezTécnico por honorariosCONACYTmcishida@ccg.unam.mx(777) 3132063
Oscar William Lithgow SerranoTécnico por honorariosOtroolithgow@ccg.unam.mx(777) 3132063
Alejandra Cristina López FuentesTécnico por honorariosOtroaclopez@ccg.unam.mx(777) 3132063
Areli Jetzabel López SolísTécnico por honorariosOtroareli.ccg@outlook.com(777) 3132063
Sara Berenice Martínez LunaTécnico por honorariosOtrosaramart@ccg.unam.mx(777) 3132063
Gabriel Martínez PosadaTécnico por honorariosUNAMgabmarti@ccg.unam.mx(777) 3132063
Adrian Munguia ReyesTécnico por honorariosCONACYTadrian_9919@hotmail.com(777) 3132063
Luis José Muñíz RascadoTécnico por honorariosUNAMljmuniz@ccg.unam.mx(777) 3132063
Miguel Angel Negreros AmayaTécnico por honorariosUNAMmik_o16@hotmail.com(777) 3132063
Pablo Emilio Peña LoredoTécnico por honorariosOtropablopl@ccg.unam.mx(777) 3132063
Mishael Sánchez PérezTécnico por honorariosOtromishael@ccg.unam.mx(777) 3132063
Alberto Santos ZavaletaTécnico por honorariosUNAMasantos@ccg.unam.mx(777) 3132063
Gerardo Salgado OsorioTécnico por honorariosOtrogsalgado@ccg.unam.mx(777) 3132063

Publicaciones del Grupo

AñoPublicaciónPMID
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
2018Gomez-Romero, Laura, Palacios-Flores, Kim, Reyes, Jose, Garcia, Delfino, Boege, Margareta, Davila, Guillermo, Flores, Margarita, Schatz, Michael C. and Palacios, Rafael. (2018). "Precise detection of de novo single nucleotide variants in human genomes". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 115(21):5516-5521. [doi:10.1073/pnas.1802244115]29735690
2017De Las Rivas, J., Bonavides-Martínez, C. and Campos-Laborie, F.J.. (2017). "Corrigendum: Bioinformatics in Latin America and SoIBio impact, a tale of spin-off and expansion around genomes and protein structures [Briefings in Bioinformatics, (2017)] doi: 10.1093/bib/bbx064". BRIEF BIOINFORM. 18(6):1091-1091. [doi:10.1093/bib/bbx114]28968628
2017Ledezma-Tejeida D, Ishida C and Collado-Vides, J. (2017). "Genome-wide mapping of transcriptional regulation and metabolism describes information-processing units in Escherichia coli". Frontiers in Microbiology. 8(AUG):1466-1466. [doi:10.3389/fmicb.2017.01466]28824593
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
2017De Las Rivas J, Bonavides-Martínez C and Campos-Laborie FJ. (2017). "Bioinformatics in Latin America and SoIBio impact, a tale of spin-off and expansion around genomes and protein structures.". BRIEF BIOINFORM. ():-. [doi:10.1093/bib/bbx064]28981567
2017Balderas-Martínez YI, Rinaldi F, Contreras G, Solano-Lira H, Sánchez-Pérez M, Collado-Vides, J, Selman M and Pardo A. (2017). "Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2017():bax030-. [doi:10.1093/database/bax030]28605770
2017Pannier L, Merino E, Marchal K and Collado-Vides, J. (2017). "Effect of genomic distance on coexpression of coregulated genes in E. coli". Plos One. 12(4):e0174887-. [doi:10.1371/journal.pone.0174887]28419102
2017Rinaldi F, Lithgow O, Gama-Castro S, Solano H, Lopez A, Muñiz Rascado LJ, Ishida-Gutiérrez C, Méndez-Cruz, CF and Collado-Vides, J. (2017). "Strategies towards digital and semi-automated curation in RegulonDB". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2017(1):bax012-. [doi:10.1093/database/bax012]28365731
2017Keseler IM, Mackie A, Santos-Zavaleta A, Billington R, Bonavides-Martínez C, Caspi R, Fulcher C, Gama-Castro S, Kothari A, Krummenacker M, Latendresse M, Muñiz-Rascado L, Ong Q, Paley S, Peralta-Gil M, Subhraveti P, Velázquez-Ramírez DA, Weaver D, Collado-Vides, J, Paulsen I and Karp PD. (2017). "The EcoCyc database: Reflecting new knowledge about Escherichia coli K-12". Nucleic Acids Research. 45(D1):543-550. [doi:10.1093/nar/gkw1003]27899573
2017Méndez-Cruz, CF, Gama-Castro S, Mejía-Almonte C, Castillo-Villalba MP, Muñiz-Rascado LJ and Collado-Vides, J. (2017). "First steps in automatic summarization of transcription factor properties for RegulonDB: classification of sentences about structural domains and regulated processes". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2017():-. [doi:10.1093/database/bax070]29220462
2016Méndez-Cruz, CF, Medina-Urrea, Alfonso and Sierra, Gerardo. (2016). "Unsupervised morphological segmentation based on affixality measurements". PATTERN RECOGNITION LETTERS. 84():127-133. [doi:10.1016/j.patrec.2016.09.001]
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
2016Wang, Qinghua, Abdul, Shabbir S., Almeida, Lara, Ananiadou, Sophia, Balderas-Martinez, Yalbi I., Batista-Navarro, Riza, Campos, David, Chilton, Lucy, Chou, Hui-Jou, Contreras, Gabriela, Cooper, Laurel, Dai, Hong-Jie, Ferrell, Barbra, Fluck, Juliane, Gama-Castro, Socorro, George, Nancy, Gkoutos, Georgios, Irin, Afroza K., Jensen, Lars J., Jimenez, Silvia, Jue, Toni R., Keseler, Ingrid, Madan, Sumit, Matos, Sergio, McQuilton, Peter, Milacic, Marija, Mort, Matthew, Natarajan, Jeyakumar, Pafilis, Evangelos, Pereira, Emiliano, Rao, Shruti, Rinaldi, Fabio, Rothfels, Karen, Salgado, David, Silva, Raquel M., Singh, Onkar, Stefancsik, Raymund, Su, Chu-Hsien, Subramani, Suresh, Tadepally, Hamsa D., Tsaprouni, Loukia, Vasilevsky, Nicole, Wang, Xiaodong, Chatr-Aryamontri, Andrew, Laulederkind, Stanley J. F., Matis-Mitchell, Sherri, McEntyre, Johanna, Orchard, Sandra, Pundir, Sangya, Rodriguez-Esteban, Raul, Van Auken, Kimberly, Lu, Zhiyong, Schaeffer, Mary, Wu, Cathy H., Hirschman, Lynette and Arighi, Cecilia N.. (2016). "Overview of the interactive task in BioCreative V". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2016():baw119-. [doi:10.1093/database/baw119]27589961
2016Moretto, M., Sonego, P., Dierckxsens, N., Brilli, M., Bianco, L., Ledezma-Tejeida, D., Gama-Castro, S., Galardini, M., Romualdi, C., Laukens, K., Collado-Vides, J, Meysman, P. and Engelen, K.. (2016). "COLOMBOS v3.0: Leveraging gene expression compendia for cross-species analyses". Nucleic Acids Research. 44(D1):620-623. [doi:10.1093/nar/gkv1251]26586805
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
2015Alvarez-Vasquez, Fernando J., Freyre-González, J.A., Balderas-Martinez, Yalbi I., Delgado-Carrillo, Monica I. and Collado-Vides, J. (2015). "Mathematical modeling of the apo and holo transcriptional regulation in Escherichia coli". Molecular Biosystems. 11(4):994-1003. [doi:10.1039/c4mb00561a]25683745
2014Gama Castro, MA. DEL SOCORRO, Rinaldi, F., López Fuentes, Alejandra Cristina, Balderas MartÍnez, Yalbi Itzel, Clematide, S., Ellendorff, T.R., Santos Zavaleta, Alberto, Marques-Madeira, H. and Collado-Vides, J. (2014). "Assisted curation of regulatory interactions and growth conditions of OxyR in E. Colik-12". DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2014():bau049-. [doi:10.1093/database/bau049]24903516
2014Meysman, Pieter, Collado-Vides, J, Morett, Enrique, Viola, Roberto, Engelen, Kristof and Laukens, Kris. (2014). "Structural properties of prokaryotic promoter regions correlate with functional features". Plos One. 9(2):e88717-. [doi:10.1371/journal.pone.0088717]24516674
2014Meysman, P., Sonego, P., Bianco, L., Fu, Q., Ledezma Tejeida, Daniela Elizabeth, Gama Castro, MA. DEL SOCORRO, Liebens, V., Laukens, K., Marchal, K., Collado-Vides, J and Engelen, K.. (2014). "COLOMBOS v2.0: An ever expanding collection of bacterial expression compendia". Nucleic Acids Research. 42(D1):649-653. [doi:10.1093/nar/gkt1086]24214998
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
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
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
2013Keseler, I.M., Mackie, A., Peralta Gil, Martín, Santos Zavaleta, Alberto, Gama Castro, MA. DEL SOCORRO, Bonavides Martínez, César Augusto, Fulcher, C., Huerta Moreno, Araceli, Kothari, A., Krummenacker, M., Latendresse, M., Muñíz Rascado, Luis José, Ong, Q., Paley, S., Schroder, I., Shearer, A.G., Subhraveti, P., Travers, M., Weerasinghe, D., Weiss, V., Collado-Vides, J, Gunsalus, R.P., Paulsen, I. and Karp, P.D.. (2013). "EcoCyc: Fusing model organism databases with systems biology". Nucleic Acids Research. 41(D1):605-612. [doi:10.1093/nar/gks1027]23143106
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
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
2011Reyes López, José, Gómez Romero, Laura Lucia, Ibarra-Soria, X., Palacios Flores, Kim, Arriola, L.R., Wences, A., García Alonso, Delfino, Boege, M., Dávila Ramos, José Guillermo, Flores López, Margarita and Palacios de la Lama, Rafael. (2011). "Context-dependent individualization of nucleotides and virtual genomic hybridization allow the precise location of human SNPs". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 108(37):15294-15299. [doi:10.1073/pnas.1112567108]21876154
2011Santos Zavaleta, Alberto, Gama Castro, MA. DEL SOCORRO and Pérez Rueda, Ernesto. (2011). "A comparative genome analysis of the RpoS sigmulon shows a high diversity of responses and origins". MICROBIOLOGY-SGM. 157(5):1393-1401. [doi:10.1099/mic.0.042937-0]21310789
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
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
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. ():-.
2011Keseler, I.M., Collado-Vides, J, Santos Zavaleta, Alberto, Peralta Gil, Martín, Gama Castro, MA. DEL SOCORRO, Muñíz Rascado, Luis José, Bonavides Martínez, César Augusto, Paley, S., Krummenacker, M., Altman, T., Spaulding, A., Spaulding, A., Pacheco, J., Latendresse, M., Fulcher, C., Sarker, M., Shearer, A.G., Mackie, A., Paulsen, I., Gunsalus, R.P. and Karp, P.D.. (2011). "EcoCyc: A comprehensive database of Escherichia coli biology". Nucleic Acids Research. 39(SUPPL. 1):583-590. [doi:10.1093/nar/gkq1143]21097882
2010Demir, E., Paley, S., Fukuda, K., Lemer, C., Vastrik, I., Wu, G., D'Eustachio, P., Schaefer, C., Luciano, J., Schacherer, F., Martinez-Flores, I., Hu, Z., Jimenez-Jacinto, V., Joshi-Tope, G., Kandasamy, K., Lopez-Fuentes, A.C., Mi, H., Pichler, E., Rodchenkov, I., Splendiani, A., Tkachev, S., Zucker, J., Gopinath, G., Rajasimha, H., Ramakrishnan, R., Shah, I., Syed, M., Anwar, N., Babur, O., Blinov, M., Brauner, E., Corwin, D., Donaldson, S., Gibbons, F., Goldberg, R., Hornbeck, P., Luna, A., Murray-Rust, P., Neumann, E., Reubenacker, O., Samwald, M., Van Iersel, M., Wimalaratne, S., Allen, K., Braun, B., Whirl-Carrillo, M., Cheung, K.H., Dahlquist, K., Finney, A., Gillespie, M., Glass, E., Gong, L., Haw, R., Honig, M., Hubaut, O., Kane, D., Krupa, S., Kutmon, M., Leonard, J., Marks, D., Merberg, D., Petri, V., Pico, A., Ravenscroft, D., Ren, L., Shah, N., Sunshine, M., Tang, R., Whaley, R., Letovksy, S., Buetow, K.H., Rzhetsky, A., Schachter, V., Sobral, B.S., Dogrusoz, U., McWeeney, S., Aladjem, M., Birney, E., Collado-Vides, J, Goto, S., Hucka, M., Novère, N.L., Maltsev, N., Pandey, A., Thomas, P., Wingender, E., Karp, P.D., Sander, C. and Bader, G.D.. (2010). "Erratum: The BioPAX community standard for pathway data sharing (Nat. Biotechnol. (2010) 28 (935-942)". Nature Biotechnology. 28(12):1308-1308. [doi:10.1038/nbt1210-1308c]
2010Demir, E., Cary, M.P., Paley, S., Fukuda, K., Lemer, C., Vastrik, I., Wu, G.N., D Eustachio, P., Schaefer, C., Luciano, J., Schacherer, F., Martínez Flores, Irma, Hu, Z.J., Jiménez-Jacinto, V., Joshi-Tope, G., Kandasamy, K., López-Fuentes, A.C., Mi, H.Y., Pichler, E., Rodchenkov, I., Splendiani, A., Tkachev, S., Zucker, J., Gopinath, G., Rajasimha, H., Ramakrishnan, R., Shah, I., Syed, M., Anwar, N., Babur, O., Blinov, M., Brauner, E., Corwin, D., Donaldson, S., Gibbons, F., Goldberg, R., Hornbeck, P., Luna, A., Murray-Rust, P., Neumann, E., Reubenacker, O., Samwald, M., van Iersel, M., Wimalaratne, S., Allen, K., Braun, B., Whirl-Carrillo, M., Cheung, K.H., Dahlquist, K., Finney, A., Gillespie, M., Glass, E., Gong, L., Haw, R., Honig, M., Hubaut, O., Kane, D., Krupa, S., Kutmon, M., Leonard, J., Marks, D., Merberg, D., Petri, V., Pico, A., Ravenscroft, D., Ren L.Y., Shah, N., Sunshine, M., Tang, R., Whaley, R., Letovksy, S., Buetow, K.H., Rzhetsky, A., Schachter, V., Sobral, B., Dogrusoz, U., McWeeney, S., Aladjem, M., Birney, E., Collado-Vides, J, Goto, S., Hucka, M., Le Novere, N., Maltsev, N., Pandey, A., Thomas, P., Wingender, E., Karp, P.D., Sander, C. and Bader, G.D.. (2010). "The BioPAX community standard for pathway data sharing". Nature Biotechnology. 28(9):935-942. [doi:10.1038/nbt.1666]20829833
2010Zepeda-Mendoza, Cinthya J., Lemus, Tzitziki, Yanez, Omar, Garcia, Delfino, Valle-Garcia, David, Meza-Sosa, Karla F., Gutierrez-Arcelus, Maria, Marquez-Ortiz, Yamile, Dominguez-Vidana, Rocio, Gonzaga-Jauregui, Claudia, Flores, Margarita and Palacios, Rafael. (2010). "Identical repeated backbone of the human genome". Bmc Genomics. 11():60-60. [doi:10.1186/1471-2164-11-60]20096123
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. ():-.
2010Martínez Flores, Irma, Jiménez-Jacinto, V., López Fuentes, Alejandra Cristina and Collado-Vides, J. (2010). "Expanding BioPAX format by integrating Gene Regulation". EMBnet.journal. 16():39-43.
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2008Freyre-González, J.A., Alonso Pavón, José Antonio, Treviño Quintanilla, Luis Gerardo and Collado-Vides, J. (2008). "Functional architecture of Escherichia coli: New insights provided by a natural decomposition approach". Genome Biology. 9(10):154-. [doi:10.1186/gb-2008-9-10-r154]18954463
2008Espinosa Angarica, Vladimir, Gonzalez Perez, Abel, Vasconcelos, Ana T., Collado-Vides, J and Contreras-Moreira, Bruno. (2008). "Prediction of TF target sites based on atomistic models of protein-DNA complexes". Bmc Bioinformatics. 9():436-436. [doi:10.1186/1471-2105-9-436]18922190
2008Janga, Sarath Chandra, Collado-Vides, J and Babu, M. Madan. (2008). "Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 105(41):15761-15766. [doi:10.1073/pnas.0806317105]18840678
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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.
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2007Karp, P.D., Keseler, I.M., Shearer, A., Latendresse, M., Krummenacker, M., Paley, S.M., Paulsen, I., Collado-Vides, J, Gama Castro, MA. DEL SOCORRO, Peralta Gil, Martín, Santos Zavaleta, Alberto, Peñaloza Spinola, Mónica Ivonne, Bonavides Martínez, César Augusto and Ingraham, J.. (2007). "Multidimensional annotation of the Escherichia coli K-12 genome". Nucleic Acids Research. 35(22):7577-7590. [doi:10.1093/nar/gkm740]17940092
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
2007Resendis Antonio, Osbaldo, Reed, J.L., Encarnación Guevara, Sergio Manuel, Collado-Vides, J and Palsson, B.O.. (2007). "Metabolic reconstruction and modeling of nitrogen fixation in Rhizobium etli". Plos Computational Biology. 3(10):1887-1895. [doi:10.1371/journal.pcbi.0030192]17922569
2007Palacios, Rafael and Collado-Vides, J. (2007). "Development of genomic sciences in Mexico: A good start and a long way to go". Plos Computational Biology. 3(9):1670-1673. [doi:10.1371/journal.pcbi.0030143]17907791
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2007Contreras Moreira, Bruno, Fernández, Pierre-Alain and Collado-Vides, J. (2007). "TFmodeller: Comparative modelling of protein-DNA complexes". Bioinformatics. 23(13):1694-1696. [doi:10.1093/bioinformatics/btm148]17459960
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2007Perez, A.G., Angarica, V.E., Vasconcelos, A.T.R. and Collado-Vides, J. (2007). "Tractor_DB (version 2.0): A database of regulatory interactions in gamma-proteobacterial genomes". Nucleic Acids Research. 35(SUPPL. 1):132-136. [doi:10.1093/nar/gkl800]17088283
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2006Huerta Moreno, Araceli, Francino, M.P., Morett Sánchez, Juan Enrique and Collado-Vides, J. (2006). "Selection for unequal densities of s70promoter-like signals in different regions of large bacterial genomes". Plos Genetics. 2(11):1740-1750. [doi:10.1371/journal.pgen.0020185]17096598
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2006Contreras Moreira, Bruno and Collado-Vides, J. (2006). "Comparative footprinting of DNA-binding proteins". Bioinformatics. 22(14):74-80. [doi:10.1093/bioinformatics/btl215]16873524
2006Huerta Moreno, Araceli, Collado-Vides, J and Francino, M.P.. (2006). "Positional conservation of clusters of overlapping promoter-like sequences in enterobacterial genomes". MOLECULAR BIOLOGY AND EVOLUTION. 23(5):997-1010. [doi:10.1093/molbev/msk004]16547149
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2005Janga, SC, Collado-Vides, J and Moreno-Hagelsieb, G. (2005). "Nebulon: A system for the inference of functional relationships of gene products from the rearrangement of predicted operons". Nucleic Acids Research. 33(8):2521-2530. [doi:10.1093/nar/gki545]15867197
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2005Ibarra-Junquera, V, Torres, LA, Rosu, HC, Arguello, G and Collado-Vides, J. (2005). "Nonlinear software sensor for monitoring genetic regulation processes with noise and modeling errors". PHYSICAL REVIEW E. 72(1):11919-11919. [doi:10.1103/PhysRevE.72.011919]16090013
2005Medrano-Soto, A, Christen, JA and Collado-Vides, J. (2005). "BClass: A Bayesian approach based on mixture models for clustering and classification of heterogeneous biological data". JOURNAL OF STATISTICAL SOFTWARE. 13(2):1-18.
2005Collado-Vides, J. (2005). "De cuantas historias se hace nuestro cuerpo". Libro de Lecturas para Secundaria. ():-.
2005Resendis Antonio, Osbaldo, Freyre-González, J.A., Menchaca Mendez, Ricardo, Gutiérrez Ríos, Rosa María, Martínez Antonio, Agustino, Ávila Sánchez, Cristhian and Collado-Vides, J. (2005). "Modular analysis of the transcriptional regulatory network of E. coli". TRENDS IN GENETICS. 21(1):16-20. [doi:10.1016/j.tig.2004.11.010]15680508
2005Keseler, I.M., Collado-Vides, J, Gama Castro, MA. DEL SOCORRO, Ingraham, J., Paley, S., Paulsen, I.T., Peralta Gil, Martín and Karp, P.D.. (2005). "EcoCyc: A comprehensive database resource for Escherichia coli". Nucleic Acids Research. 33(DATABASE ISS.):334-337. [doi:10.1093/nar/gki108]15608210
2005Gonzalez, A.D., Espinosa, V., Vasconcelos, A.T., Perez-Rueda, E. and Collado-Vides, J. (2005). "TRACTOR_DB: A database of regulatory networks in gamma-proteobacterial genomes". Nucleic Acids Research. 33(DATABASE ISS.):98-102. [doi:10.1093/nar/gki054]15608293
2005Collado-Vides, J. (2005). "De que Tamaño es Nuestro Cuerpo". Libro de Lecturas para Secundaria. ():-.
2004Perez-Rueda, E., Collado-Vides, J and Segovia, L.. (2004). "Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea". COMPUTATIONAL BIOLOGY AND CHEMISTRY. 28(5-6):341-350. [doi:10.1016/j.compbiolchem.2004.09.004]15556475
2004Resendis-Antonio, O and Collado-Vides, J. (2004). "The growth of random networks as a diffusion process". PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS. 342(3-4):551-560. [doi:10.1016/j.physa.2004.05.037]
2004Medrano Soto, Luis Arturo, Moreno Hagelsieb, Gabriel, Vinuesa, P., Christen, J.A. and Collado-Vides, J. (2004). "Successful lateral transfer requires codon usage compatibility between foreign genes and recipient genomes". MOLECULAR BIOLOGY AND EVOLUTION. 21(10):1884-1894. [doi:10.1093/molbev/msh202]15240837
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
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2004Karp, PD, Arnaud, M, Collado-Vides, J, Ingraham, J, Paulsen, IT and Saier, MH. (2004). "The E. coli EcoCyc database: No longer just a metabolic pathway database". Asm News. 70(1):25-30.
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
2003Jauregui, R, Abreu-Goodger, C, Moreno-Hagelsieb, G, Collado-Vides, J and Merino, E. (2003). "Conservation of DNA curvature signals in regulatory regions of prokaryotic genes". Nucleic Acids Research. 31(23):6770-6777. [doi:10.1093/nar/gkg882]14627810
2003Gutiérrez Ríos, Rosa María, Rosenblueth, D.A., Loza, José Antonio, Huerta Moreno, Araceli, Glasner, J.D., Blattner, F.R. and Collado-Vides, J. (2003). "Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles". GENOME RESEARCH. 13(11):2435-2443. [doi:10.1101/gr.1387003]14597655
2003Huerta, AM and Collado-Vides, J. (2003). "Sigma70 promoters in Escherichia coli: Specific transcription in dense regions of overlapping promoter-like signals". Journal Of Molecular Biology. 333(2):261-278. [doi:10.1016/j.jmb.2003.07.017]14529615
2003Perret, X., Kobayashi, H. and Collado-Vides, J. (2003). "Regulation of expression of symbiotic genes in Rhizobium sp. NGR234". INDIAN JOURNAL OF EXPERIMENTAL BIOLOGY. 41(10):1101-1113. 15242276
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2003Collado-Vides, J, Medrano Soto, Luis Arturo and Tusié-Luna, M.T.. (2003). "With the finished human genome in hand, what next?". Genome Biology. 4(7):328-328. [doi:10.1186/gb-2003-4-7-328]12844356
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2002Moreno Hagelsieb, Gabriel and Collado-Vides, J. (2002). "A powerful non-homology method for the prediction of operons in prokaryotes.". Bioinformatics. 18 Suppl 1():329-336. 12169563
2002Degrave, W.M., Vargas, R., Alvarez, F., Collado-Vides, J, Nunez, L., Ramirez, J.L. and Grau, O.. (2002). "Towards a bioinformatics network for Latin America and the Caribbean (LACBioNet).". Applied Bioinformatics. 1(1):53-56. 15130857
2002Collado-Vides, J, Moreno-Hagelsieb, G. and Medrano-Soto, A.. (2002). "Microbial computational genomics of gene regulation". PURE AND APPLIED CHEMISTRY. 74(6):899-905.
2002de Daruvar, A, Collado-Vides, J and Valencia, A. (2002). "Analysis of the cellular functions of Escherichia coli operons and their conservation in Bacillus Subtilis". Journal Of Molecular Evolution. 55(2):211-221. [doi:10.1007/s00239-002-2317-1]12107597
2002Collado-Vides, J, Moreno-Hagelsieb, G and Medrano-Soto, A. (2002). "Microbial computational genomics of gene regulation". PURE AND APPLIED CHEMISTRY. 74(6):899-905. [doi:10.1351/pac200274060899]
2002Huerta, AM, Glasner, JD, Gutierrez-Rios, RM, Blattner, FR and Collado-Vides, J. (2002). "GETools: gene expression tool for analysis of transcriptome experiments in E. coli". TRENDS IN GENETICS. 18(4):217-218. [doi:10.1016/S0168-9525(01)02620-8]
2002Huerta, A.M., Glasner, J.D., Gutiérrez-Ríos, R.M., Blattner, F.R. and Collado-Vides, J. (2002). "Erratum: Common pitfalls in bioinformatics based analyses: Look before you leap (Trends in Genetics (2001) 17 (541-545) PII S0168952502026628)". TRENDS IN GENETICS. 18(4):218-218. [doi:10.1016/S0168-9525(02)02662-8]
2002Benítez Bellón, Esperanza, Moreno Hagelsieb, Gabriel and Collado-Vides, J. (2002). "Evaluation of thresholds for the detection of binding sites for regulatory proteins in Escherichia coli K12 DNA.". Genome Biology. 3(3):RESEARCH0013-. 11897025
2002Karp, PD, Riley, M, Saier, M, Paulsen, IT, Collado-Vides, J, Paley, SM, Pellegrini-Toole, A, Bonavides, C and Gama-Castro, S. (2002). "The EcoCyc database". Nucleic Acids Research. 30(1):56-58. [doi:10.1093/nar/30.1.56]11752253
2002Moreno Hagelsieb, Gabriel and Collado-Vides, J. (2002). "Operon conservation from the point of view of Escherichia coli, and inference of functional interdependence of gene products from genome context". In Silico Biology: Journal of Biological Systems Modeling and Multi-Scale Simulation. 2(2):87-95. 12066843
2001Pérez-Rueda, E and Collado-Vides, J. (2001). "Common history at the origin of the position - Function correlation in transcriptional regulators in archaea and bacteria". Journal Of Molecular Evolution. 53(3):172-179. [doi:10.1007/s002390010207]11523004
2001Tan, K., Moreno Hagelsieb, Gabriel, Collado-Vides, J and Stormo, G.D.. (2001). "A comparative genomics approach to prediction of new members of regulons". GENOME RESEARCH. 11(4):566-584. [doi:10.1101/gr.149301]11282972
2001Moreno-Hagelsieb, G, Trevino, V, Pérez-Rueda, E, Smith, TF and Collado-Vides, J. (2001). "Transcription unit conservation in the three domains of life: A perspective from Escherichia coli". TRENDS IN GENETICS. 17(4):175-177. [doi:10.1016/S0168-9525(01)02241-7]11275307
2001Ramirez-Santos, J, Collado-Vides, J, Garcia-Varela, M and Gomez-Eichelmann, MC. (2001). "Conserved regulatory elements of the promoter sequence of the gene rpoH of enteric bacteria". Nucleic Acids Research. 29(2):380-386. [doi:10.1093/nar/29.2.380]11139607
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
2000Perez-Rueda, Ernesto and Collado-Vides, J. (2000). "The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12". Nucleic Acids Research. 28(8):1838-1847. [doi:10.1093/nar/28.8.1838]10734204
2000van Heiden, Jacques, Rios, Alma. F. and Collado-Vides, J. (2000). "Discovering regulatory elements in non-coding sequences by analysis of spaced dyads". Nucleic Acids Research. 28(8):1808-1818. [doi:10.1093/nar/28.8.1808]10734201
2000van Helden, J., Andre, B. and Collado-Vides, J. (2000). "A web site for the computational analysis of yeast regulatory sequences". Yeast. 16(2):177-187. <a target="_blank" href="http://dx.doi.org/10.1002/(SICI)1097-0061(20000130)16:23.0.CO;2-9">[doi:10.1002/(SICI)1097-0061(20000130)16:23.0.CO;2-9]10641039
2000Strainic, MG, Sullivan, JJ, Collado-Vides, J and deHaseth, PL. (2000). "Promoter interference in a bacteriophage lambda control region: Effects of a range of interpromoter distances". Journal Of Bacteriology. 182(1):216-220. [doi:10.1128/JB.182.1.216-220.2000]10613884
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
1999Collado-Vides, J, Hofestadt, R., Mavrovouniotis, M. and Michal, G.. (1999). "Modeling and simulation of gene regulation and metabolic pathways". Biosystems. 49(1):79-82. [doi:10.1016/S0303-2647(98)00081-1]10091975
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
1998van Helden, J., Andre, B. and Collado-Vides, J. (1998). "Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies". Journal Of Molecular Biology. 281(5):827-842. [doi:10.1006/jmbi.1998.1947]9719638
1998Collado-Vides, J, Gutierrez-Rios, RM and Bel-Enguix, G. (1998). "Networks of transcriptional regulation encoded in a grammatical model". Biosystems. 47(1-2):103-118. [doi:10.1016/S0303-2647(98)00016-1]9715754
1998Thieffry Jacot-Descombes, Denis Louis, Huerta Moreno, Araceli, Pérez Rueda, Ernesto and Collado-Vides, J. (1998). "From specific gene regulation to genomic networks: A global analysis of transcriptional regulation in Escherichia coli". Bioessays. 20(5):433-440. <a target="_blank" href="http://dx.doi.org/10.1002/(SICI)1521-1878(199805)20:53.0.CO;2-2">[doi:10.1002/(SICI)1521-1878(199805)20:53.0.CO;2-2]9670816
1998Pérez Rueda, Ernesto, Gralla, J.D. and Collado-Vides, J. (1998). "Genomic position analyses and the transcription machinery". Journal Of Molecular Biology. 275(2):165-170. [doi:10.1006/jmbi.1997.1465]9466899
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
1997Blattner, FR, Plunkett, G, Bloch, CA, Perna, NT, Burland, V, Riley, M, Collado-Vides, J, Glasner, JD, Rode, CK, Mayhew, GF, Gregor, J, Davis, NW, Kirkpatrick, HA, Goeden, MA, Rose, DJ, Mau, B and Shao, Y. (1997). "The complete genome sequence of Escherichia coli K-12". Science. 277(5331):1453-1462. [doi:10.1126/science.277.5331.1453]9278503
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
1997Collado-Vides, J, Huerta, AM and Klose, K. (1997). "Three models of gene regulation in E. coli". LECT NOTES COMPUT SC. 1278():72-78.
1996Collado-Vides, J. (1996). "Towards a unified grammatical model of s70 and s54 bacterial promoters". Biochimie. 78(5):351-363. [doi:10.1016/0300-9084(96)84767-5]8905154
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
1996Hofestadt, R., Mavrovouniotis, M., Collado-Vides, J and Loffler, M.. (1996). "Modeling and simulation of metabolic pathways, gene regulation and cell differentiation. International Conference and Research Center for Computer Science, Schloss Dagstuhl, Saarland, Germany, 22-27 October, 1995". Bioessays. 18(4):333-335. [doi:10.1002/bies.950180412]8967902
1993Collado-Vides, J. (1993). "The elements for a classification of units of genetic information with a combinatorial component". JOURNAL OF THEORETICAL BIOLOGY. 163(4):527-548. [doi:10.1006/jtbi.1993.1136]8246512
1993Collado-Vides, J. (1993). "A linguistic representation of the regulation of transcription initiation. I. An ordered array of complex symbols with distinctive features". Biosystems. 29(2-3):87-104. [doi:10.1016/0303-2647(93)90086-R]8374070
1993Collado-Vides, J. (1993). "A linguistic representation of the regulation of transcription initiation. II. Distinctive features of sigma 70 promoters and their regulatory binding sites". Biosystems. 29(2-3):105-128. [doi:10.1016/0303-2647(93)90087-S]8374063
1992Collado-Vides, J. (1992). "Grammatical model of the regulation of gene expression". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 89(20):9405-9409. [doi:10.1073/pnas.89.20.9405]1409648
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