Zappulo,A. van den,B.D. Ciolli,M.C. Franke,V. Imami,K. McShane,E. Moreno-Estelles,M. Calviello,L. Filipchyk,A. Peguero-Sanchez,E. Muller,T. Woehler,A. Birchmeier,C. Merino,E. Rajewsky,N. Ohler,U. Mazzoni,E.O. Selbach,M. Akalin,A. Chekulaeva,M.
2017. RNA localization is a key determinant of neurite-enriched proteome Nature Communications, 8, 583.
Merino,E. Flores-Encarnacion,M. Aguilar-Gutierrez,G.R.
2017. Functional interaction and structural characteristics of unique components of Helicobacter pylori T4SS Febs Journal, 284, 3540-3549.
Gutierrez-Preciado,A. Vargas-Chavez,C. Reyes-Prieto,M. Ordonez,O.F. Santos-Garcia,D. Rosas-Perez,T. Valdivia-Anistro,J. Rebollar,E.A. Saralegui,A. Moya,A. Merino,E. Farias,M.E. Latorre,A. Souza,V.
2017. The genomic sequence of Exiguobacterium chiriqhucha str. N139 reveals a species that thrives in cold waters and extreme environmental conditions PeerJ, 5, e3162.
Pannier,L. Merino,E. Marchal,K. Collado-Vides,J.
2017. Effect of genomic distance on coexpression of coregulated genes in E. coli PLoS ONE, 12, e0174887.
Vega-Cabrera,L.A. Guerrero,A. Rodriguez-Mejia,J.L. Tabche,M.L. Wood,C.D. Gutierrez-Rios,R.M. Merino,E. Pardo-Lopez,L.
2017. Analysis of Spo0M function in Bacillus subtilis PLoS ONE, 12, e0172737.
Rodriguez-Mejia,J.L. Roldan-Salgado,A. Osuna,J. Merino,E. Gaytan,P.
2017. A Codon Deletion at the Beginning of Green Fluorescent Protein Genes Enhances Protein Expression Journal of Molecular Microbiology and Biotechnology, 27, 1-10.
Oliver,P. Peralta-Gil,M. Tabche,M.L. Merino,E.
2016. Molecular and structural considerations of TF-DNA binding for the generation of biologically meaningful and accurate phylogenetic footprinting analysis: the LysR-type transcriptional regulator family as a study model BMC Genomics, 17, 686.
Rodriguez-Escamilla,Z. Martinez-Nunez,M.A. Merino,E.
2016. Epigenetics knocks on synthetic biology's Door Fems Microbiology Letters, 363, Article number fnw191.
Mucito-Varela,E. Castillo-Rojas,G. Cevallos,M.A. Lozano,L. Merino,E. Lopez-Leal,G. Lopez-Vidal,Y.
2016. Complete Genome Sequence of Helicobacter pylori Strain 29CaP Isolated from a Mexican Patient with Gastric Cancer Genome Announcements, 4, .
Mucito-Varela,E. Castillo-Rojas,G. Cevallos,M.A. Lozano,L. Merino,E. Lopez-Leal,G. Lopez-Vidal,Y.
2016. Complete Genome Sequence of Helicobacter pylori Strain 7C Isolated from a Mexican Patient with Chronic Gastritis Genome Announcements, 4, .
Peguero-Sanchez,E. Pardo-Lopez,L. Merino,E.
2015. IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association BMC Genomics, 16, 1059.
Moran,J. Ramirez,G. Jimenez,L. Cruz,A. Perez-Patrigeon,S. Hidalgo,A. Orozco,L. Martinez,A. Padilla,L. Avila-Moreno,F. Cabello,C. Granados,J. Ortiz-Quintero,B. Ramirez-Venegas,A. Ruiz-Palacios,G.M. Zlotnik,A. Merino,E. Zuniga,J.
2015. Circulating levels of miR-150 are associated with poorer outcomes of A/H1N1 infection Experimental and Molecular Pathology, 99, 253-261.
Gutierrez-Preciado,A. Torres,A.G. Merino,E. Bonomi,H.R. Goldbaum,F.A. Garcia-Angulo,V.A.
2015. Extensive Identification of Bacterial Riboflavin Transporters and Their Distribution across Bacterial Species PLoS ONE, 10, e0126124.
Camacho,M.I. Alvarez,A.F. Gonzalez-Chavez,R.G. Romeo,T. Merino,E. Georgellis,D.
2015. Effects of the global regulator CsrA on the BarA/UvrY two-component signaling system Journal of Bacteriology, 197, 983-991.
Grosso-Becerra,M.V. Croda-Garcia,G. Merino,E. Servin-Gonzalez,L. Mojica-Espinosa,R. Soberon-Chavez,G.
2014. Regulation of Pseudomonas aeruginosa virulence factors by two novel RNA thermometers Proceedings of the National Academy of Sciences of the United States of America, 111, 15562-15567.
Freyre-Gonzalez,J.A. Manjarrez-Casas,A.M. Merino,E. Martinez-Nunez,M. Perez-Rueda,E. Gutierrez-Rios,R.M.
2013. Lessons from the modular organization of the transcriptional regulatory network of Bacillus subtilis BMC Systems Biology, 7, 127.
Barraza,A. Estrada-Navarrete,G. Rodriguez-Alegria,M.E. Lopez-Munguia,A. Merino,E. Quinto,C. Sanchez,F.
2013. Down-regulation of PvTRE1 enhances nodule biomass and bacteroid number in the common bean New Phytologist, 197, 194-206.
Gutierrez-Preciado,A. Merino,E.
2012. Elucidating metabolic pathways and digging for genes of unknown function in microbial communities: the riboswitch approach Clinical Microbiology and Infection, 18 Suppl 4, 35-39.
Taboada,B. Ciria,R. Martinez-Guerrero,C.E. Merino,E.
2012. ProOpDB: Prokaryotic Operon DataBase Nucleic Acids Research, 40, D627-D631.
Taboada,B. Verde,C. Merino,E.
2010. High accuracy operon prediction method based on STRING database scores Nucleic Acids Research, 3812, .
Martinez-Nunez,M.A. Perez-Rueda,E. Gutierrez-Rios,R.M. Merino,E.
2010. New insights into the regulatory networks of paralogous genes Microbiology, 156, 14-22.
Qu,Y. Brown,P. Barbe,J.F. Puljic,M. Merino,E. Adkins,R.M. Lovley,D.R. Krushkal,J.
2009. GSEL version 2, an online genome-wide query system of operon organization and regulatory sequence elements of Geobacter sulfurreducens OMICS, 13, 439-449.
De la Cruz,M.A. Merino,E. Oropeza,R. Tellez,J. Calva,E.
2009. The DNA static curvature has a role in the regulation of the ompS1 porin gene in Salmonella enterica serovar Typhi Microbiology, 155, 2127-2136.
Romero-Garcia,S. Hernandez-Bustos,C. Merino,E. Gosset,G. Martinez,A.
2009. Homolactic fermentation from glucose and cellobiose using Bacillus subtilis Microbial Cell Factories, 8, 23.
Gutierrez-Preciado,A. Henkin,T.M. Grundy,F.J. Yanofsky,C. Merino,E.
2009. Biochemical Features and Functional Implications of the RNA-Based T-Box Regulatory Mechanism Microbiology and Molecular Biology Reviews, 73, 36-61.
Arreola,R. Vega-Miranda,A. Gomez-Puyou,A. Perez-Montfort,R. Merino-Perez,E. Torres-Larios,A.
2008. Expression, purification and preliminary X-ray diffraction studies of the transcriptional factor PyrR from Bacillus halodurans Acta Crystallographica Section F: Structural Biology Communications, 64, 692-696.
Martinez-Guerrero,C.E. Ciria,R. Abreu-Goodger,C. Moreno-Hagelsieb,G. Merino,E.
2008. GeConT 2: gene context analysis for orthologous proteins, conserved domains and metabolic pathways Nucleic Acids Research, 36 (Web Server issue), W176-W180.
Merino,E. Jensen,R.A. Yanofsky,C.
2008. Evolution of bacterial trp operons and their regulation Current Opinion in Microbiology, 11, 78-86.
Gama-Castro,S. Jimenez-Jacinto,V. Peralta-Gil,M. Santos-Zavaleta,A. Penaloza-Spinola,M.I. Contreras-Moreira,B. Segura-Salazar,J. Muniz-Rascado,L. Martinez-Flores,I. Salgado,H. Bonavides-Martinez,C. Abreu-Goodger,C. Rodriguez-Penagos,C. Miranda-Rios,J. Morett,E. Merino,E. Huerta,A.M. Trevino-Quintanilla,L. 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 (Database issue), D120-D124.
Rodriguez-Magadan,H. Merino,E. Schnabel,D. Ramirez,L. Lomeli,H.
2008. Spatial and temporal expression of Zimp7 and Zimp10 PIAS-like proteins in the developing mouse embryo Gene Expression Patterns, 8, 206-213.
Flores,N. Escalante,A. de Anda,R. Baez-Viveros,J.L. Merino,E. Franco,B. Georgellis,D. Gosset,G. Bolivar,F.
2008. New Insights into the Role of Sigma Factor RpoS as Revealed in Escherichia coli Strains Lacking the Phosphoenolpyruvate:Carbohydrate Phosphotransferase System Journal of Molecular Microbiology and Biotechnology, 14, 176-192.
Romero,S. Merino,E. Bolivar,F. Gosset,G. Martinez,A.
2007. Metabolic engineering of Bacillus subtilis for ethanol production: Lactate dehydrogenase plays a key role in the fermentative metabolism Applied and Environmental Microbiology, 73, 5190-5198.
Gutierrez-Preciado,A. Yanofsky,C. Merino,E.
2007. Comparison of tryptophan biosynthetic operon regulation in different Gram-positive bacterial species Trends in Genetics, 23, 422-426.
Abreu-Goodger,C. Merino,E.
2006. Identification of bacteria riboswitches through comparative genomics Revista Latinoamericana de Microbiologia, 48, 143-145.
Olivares-Zavaleta,N. Jauregui,R. Merino,E.
2006. Genome analysis of Escherichia coli promoter sequences evidences that DNA static curvature plays a more important role in gene transcription than has previously been anticipated Genomics, 87, 329-337.
Abreu-Goodger,C. Merino,E.
2005. RibEx: a web server for locating riboswitches and other conserved bacterial regulatory elements Nucleic Acids Research, 33, W690-W692.
Gutierrez-Preciado,A. Jensen,R.A. Yanofsky,C. Merino,E.
2005. New insights into regulation of the tryptophan biosynthetic operon in Gram-positive bacteria Trends in Genetics, 21, 432-436.
Merino,E. Yanofsky,C.
2005. Transcription attenuation: a highly conserved regulatory strategy used by bacteria Trends in Genetics, 21, 260-264.
Abreu-Goodger,C. Ontiveros-Palacios,N. Ciria,R. Merino,E.
2004. Conserved regulatory motifs in bacteria: riboswitches and beyond Trends in Genetics, 20, 475-479.
Ciria,R. Abreu-Goodger,C. Morett,E. Merino,E.
2004. GeConT: gene context analysis Bioinformatics, 20, 2307-2308.
Jauregui,R. Abreu-Goodger,C. Moreno-Hagelsieb,G. Collado-Vides,J. Merino,E.
2003. Conservation of DNA curvature signals in regulatory regions of prokaryotic genes Nucleic Acids Research, 31, 6770-6777.
Corona,M. Coronas,F.V. Merino,E. Becerril,B. Gutierrez,R. Rebolledo-Antunez,S. Garcia,D.E. Possani,L.D.
2003. A novel class of peptide found in scorpion venom with neurodepressant effects in peripheral and central nervous system of the rat Biochimica et Biophysica Acta-Proteins and Proteomics, 1649, 58-67.
Rodriguez de la Vega,R.C. Merino,E. Becerril,B. Possani,L.D.
2003. Novel interactions between K(+) channels and scorpion toxins Trends in Pharmacological Sciences, 24, 222-227.
Corona,M. Gurrola,G.B. Merino,E. Cassulini,R.R. Valdez-Cruz,N.A. Garcia,B. Ramirez-Dominguez,M.E. Coronas,F.I. Zamudio,F.Z. Wanke,E. Possani,L.D.
2002. A large number of novel Ergtoxin-like genes and ERG K(+)-channels blocking peptides from scorpions of the genus Centruroides FEBS Letters, 532, 121-126.
Corona,M. Valdez-Cruz,N.A. Merino,E. Zurita,M. Possani,L.D.
2001. Genes and peptides from the scorpion Centruroides sculpturatus Ewing, that recognize Na(+)-channels Toxicon, 39, 1893-1898.
Jan,J. Valle,F. Bolivar,F. Merino,E.
2001. Construction of protein overproducer strains in Bacillus subtilis by an integrative approach Applied Microbiology and Biotechnology, 55, 69-75.
Possani,L.D. Merino,E. Corona,M. Bolivar,F. Becerril,B.
2000. Peptides and genes coding for scorpion toxins that affect ion-channels Biochimie, 82, 861-868.
Sarsero,J.P. Merino,E. Yanofsky,C.
2000. A Bacillus subtilis operon containing genes of unknown function senses tRNATrp charging and regulates expression of the genes of tryptophan biosynthesis Proceedings of the National Academy of Sciences of the United States of America, 97, 2656-2661.
Sarsero,J.P. Merino,E. Yanofsky,C.
2000. A Bacillus subtilis gene of previously unknown function, yhaG, is translationally regulated by tryptophan-activated TRAP and appears to be involved in tryptophan transport Journal of Bacteriology, 182, 2329-2331.
Merino,E. Garciarrubio,A.
2000. The global intrinsic curvature of archaeal and eubacterial genomes is mostly contained in their dinucleotide composition and is probably not an adaptation Nucleic Acids Research, 28, 2431-2438.
Jauregui,R. Bolivar,F. Merino,E.
2000. Relationship between whole proteome aminoacid composition and static DNA curvature Microbial & comparative genomics, 5, 7-15.
Jan,J. Valle,F. Bolivar,F. Merino,E.
2000. Characterization of the 5 ' subtilisin (aprE) regulatory region from Bacillus subtilis Fems Microbiology Letters, 183, 9-14.
Sanchez-Lopez,R. Gama-Castro,S. Ramos,M.A. Merino,E. Lizardi,P.M. Alagon,A.
1998. Cloning and expression of the Entamoeba histolytica ERD2 gene Molecular and Biochemical Parasitology, 92, 355-359.
Jauregui,R. O'Reilly,F. Bolivar,F. Merino,E.
1998. Relationship between codon usage and sequence-dependent curvature of genomes Microbial & comparative genomics, 3, 243-253.
Merino,E. Babitzke,P. Yanofsky,C.
1995. trp RNA-binding attenuation protein (TRAP)-trp leader RNA interactions mediate translational as well as transcriptional regulation of the Bacillus subtilis trp operon Journal of Bacteriology, 177, 6362-6370 * .
Ospina,S. Merino,E. Ramirez,O.T. Lopez-Munguia,A.
1995. Recombinant whole cell penicillin acylase biocatalyst: Production, characterization and use in the synthesis and hydrolysis of antibiotics Biotechnology Letters, 17, 615-620.
Merino,E. Balbas,P. Puente,J.L. Bolivar,F.
1994. Antisense overlapping open reading frames in genes from bacteria to humans Nucleic Acids Research, 22, 1903-1908.
Ramirez,O.T. Zamora,R. Espinosa,G. Merino,E. Bolivar,F. Quintero,R.
1994. Kinetic study of penicillin acylase production by recombinant E. Coli in batch cultures Process Biochemistry, 29, 197-206.
Merino,E. Osuna,J. Bolivar,F. Soberon,X.
1992. A general, PCR-based method for single or combinatorial oligonucleotide-directed mutagenesis on pUC/M13 vectors.Biotechniques, 12, 508-510.
Flores,N. Valle,F. Bolivar,F. Merino,E.
1992. Recovery of DNA from agarose gels stained with methylene blue.Biotechniques, 13, 203-205.
Merino,E. Balbas,P. Aarons,S.R. Recillas,F. Becerril,B. Valle,F. Bolivar,F.
1992. Carbon regulation and the role in nature of the Escherichia coli penicillin acylase (pac) gene Molecular Microbiology, 6, 2175-2182.
Merino,E. Balbas,P. Bolivar,F.
1991. New insights on the comma-less theory Origins of Life and Evolution of the Biosphere, 21, 251-254.
Valle,F. Balbas,P. Merino,E. Bolivar,F.
1991. The role of penicillin amidases in nature and in industry Trends in Biochemical Sciences, 16, 36-40.
Merino,E. Bolivar,F.
1989. The ribonucleoside diphosphate reductase gene (nrdA) of Escherichia coli carries a repetitive extragenic palindromic (REP) sequence in its 3' structural terminus Molecular Microbiology, 3, 839-841.
Gosset,G. Merino,E. Recillas,F. Oliver,G. Becerril,B. Bolivar,F.
1989. Amino acid sequence analysis of the glutamate synthase enzyme from Escherichia coli K-12.Protein sequences & data analysis, 2, 9-16.
Merino,E. Becerril,B. Valle,F. Bolivar,F.
1987. Deletion of a repetitive extragenic palindromic (REP) sequence downstream from the structural gene of Escherichia coli glutamate dehydrogenase affects the stability of its mRNA Gene, 58, 305-309.
Balbas,P. Soberon,X. Merino,E. Zurita,M. Lomeli,H. Valle,F. Flores,N. Bolivar,F.
1986. Plasmid vector pBR322 and its special-purpose derivatives--a review Gene, 50, 3-40.
Becerril,B. Valle,F. Merino,E. Riba,L. Bolivar,F.
1985. Repetitive extragenic palindromic (REP) sequences in the Escherichia coli gdhA gene Gene, 37, 53-62.
Merino,E. Jensen,R.A. Yanofsky,C. 2013. trp Operon Organization and Regulation in Different Bacterial Species en: Hughes,K. Brenner's Encyclopedia of Genetics (Second Edition). San Diego. Academic Press. pags. 208-212
Ciuffo,L.N. Alves,L. Alves de Melo,A.C. Aparicio,G. Arce,P. Blanquer,I. Burbano,D.A. Carrion,A. Castro,H. Hernandez,V. Hurtado,J.M. Isea,R. Lagares,J.I. Lopez-Fenner,J. Mayo,R. Merino,E. Montes,E. Nogales-Cadenas,I. Oliviera,I. Pascual-Montano,A. Perez,M.A. Pezoa,R. Roa,J.C. Romero,F. Rubio-Montero,J.A. Salinas,L. Tirado,F. Verleyen,J. Vicente-Molina,C. Walter,W.E. 2009. Biomedical applications in the EELA-2 project en: NETTAB 2009 Ninth Annual Workshop Network Tools and Applications in Biology, 10-12 June 2009, Catania, Italy. Nettab. pags. 35-38
Gutierrez-Preciado,A. Peimbert,M. Merino,E. 2009. Genome Sequence Databases: Types of Data and Bioinformatic Tools en: Schaechter,M. Encyclopedia of Microbiology. Oxford. Elsevier. pags. 211-236
Verleyen,J. Hurtado-Ramirez,J.M. Merino-Perez,E. 2009. Meta-Dock, a gridification of a docking application en: Mayo,R. Proceedings of the First EELA-2. CIEMAT. pags. 147-153
Gutierrez,R.M. Merino,E. 2008. Genes, genomas y metagenomas: de Mendel a Venter en: *agustin Una ventana al quehacer científico. Instituto de Biotecnología de la UNAM 25 aniversario, cap 7. Mexico, D.F.. UNAM. pags. 70-80
Merino,E. 2004. Las matematicas en la genomica molecular en: Miramontes,P. Las matematicas y su entorno. Mexico. Siglo XXI. pags. 67-88
Devos,D. Merino,E. Pazos,F. Valencia,A. 2003. Multiple Sequence Alignment Information in Structure and Function Prediction en: Shamir,R. Artificial intelligence and heuristic methods in bioinformatics. Amsterdam. IOS Publishers. pags. 83-94
Morett,E. Saab-Rincon,G. Merino,E. Bork,P. Rajan,E. Olvera,L. (error para maricela.olvera@mail.ibt.unam.mx) 2003. High rate of gene displacement in vitamin biosynthesis pathways en: Andrade,M.A. Bioinformatics and genomes: current perspectives. Norfolk,U.K.. Horizon Scientific Press. pags. 69-79
Possani,L.D. Merino,E. Corona,M. Becerril,B. 2002. Scorpion genes and peptides specific for potassium channels: Structure, function and evolution en: Menez,A. Perspectives in Molecular Toxinology. pags. 201-214
Merino,E. Yanofsky,C. 2002. Regulation by termination-antitermination: a genomic approach. en: Losick,R. Bacillus subtilis and Its Closest Relatives: from Genes to Cells. Washington. American Society for Microbiology. pags. 323-326
Babitsky,P. Gollnick,P. Merino,E. Yanofsky,C. 2001. Aromatic amino acid metabolism in Bacillus Subtilis en: Sonenshein,J.L. Bacillus subtilis and its closest relatives: from genes to cells. New York. ASM Press. pags. 233-244
Gomez,A. Rodriguez,M. Ospina,S. Zamora,R. Merino,E. Bolivar,F. Ramirez,O.T. Quintero,R. Lopez-Munguia,A. 1994. Strategies in the design of a penicillin acylase process en: *tonatiuh Kluwer Academic. pags. 29-40
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