Search Results - "Huerta, Araceli"

Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli by Mendoza-Vargas, Alfredo, Olvera, Leticia, Olvera, Maricela, Grande, Ricardo, Vega-Alvarado, Leticia, Taboada, Blanca, Jimenez-Jacinto, Verónica, Salgado, Heladia, Juárez, Katy, Contreras-Moreira, Bruno, Huerta, Araceli M, Collado-Vides, Julio, Morett, Enrique

“…Despite almost 40 years of molecular genetics research in Escherichia coli a major fraction of its Transcription Start Sites (TSSs) are still unknown, limiting…”
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EcoCyc: fusing model organism databases with systems biology by Keseler, Ingrid M, Mackie, Amanda, Peralta-Gil, Martin, Santos-Zavaleta, Alberto, Gama-Castro, Socorro, Bonavides-Martínez, César, Fulcher, Carol, Huerta, Araceli M, Kothari, Anamika, Krummenacker, Markus, Latendresse, Mario, Muñiz-Rascado, Luis, Ong, Quang, Paley, Suzanne, Schröder, Imke, Shearer, Alexander G, Subhraveti, Pallavi, Travers, Mike, Weerasinghe, Deepika, Weiss, Verena, Collado-Vides, Julio, Gunsalus, Robert P, Paulsen, Ian, Karp, Peter D

“…EcoCyc (http://EcoCyc.org) is a model organism database built on the genome sequence of Escherichia coli K-12 MG1655. Expert manual curation of the functions…”
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RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more by Salgado, Heladia, Peralta-Gil, Martin, Gama-Castro, Socorro, Santos-Zavaleta, Alberto, Muñiz-Rascado, Luis, García-Sotelo, Jair S, Weiss, Verena, Solano-Lira, Hilda, Martínez-Flores, Irma, Medina-Rivera, Alejandra, Salgado-Osorio, Gerardo, Alquicira-Hernández, Shirley, Alquicira-Hernández, Kevin, López-Fuentes, Alejandra, Porrón-Sotelo, Liliana, Huerta, Araceli M, Bonavides-Martínez, César, Balderas-Martínez, Yalbi I, Pannier, Lucia, Olvera, Maricela, Labastida, Aurora, Jiménez-Jacinto, Verónica, Vega-Alvarado, Leticia, Del Moral-Chávez, Victor, Hernández-Alvarez, Alfredo, Morett, Enrique, Collado-Vides, Julio

“…This article summarizes our progress with RegulonDB (http://regulondb.ccg.unam.mx/) during the past 2 years. We have kept up-to-date the knowledge from the…”
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RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation by Gama-Castro, Socorro, Jiménez-Jacinto, Verónica, Peralta-Gil, Martín, Santos-Zavaleta, Alberto, Peñaloza-Spinola, Mónica I, Contreras-Moreira, Bruno, Segura-Salazar, Juan, Muñiz-Rascado, Luis, Martínez-Flores, Irma, Salgado, Heladia, Bonavides-Martínez, César, Abreu-Goodger, Cei, Rodríguez-Penagos, Carlos, Miranda-Ríos, Juan, Morett, Enrique, Merino, Enrique, Huerta, Araceli M, Treviño-Quintanilla, Luis, Collado-Vides, Julio

“…RegulonDB (http://regulondb.ccg.unam.mx/) is the primary reference database offering curated knowledge of the transcriptional regulatory network of Escherichia…”
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Sigma70 Promoters in Escherichia coli: Specific Transcription in Dense Regions of Overlapping Promoter-like Signals by Huerta, Araceli M., Collado-Vides, Julio

“…We present here a computational analysis showing that sigma70 house-keeping promoters are located within zones with high densities of promoter-like signals in…”
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Regulatory network of Escherichia coli: consistency between literature knowledge and microarray profiles by Gutiérrez-Ríos, Rosa María, Rosenblueth, David A, Loza, José Antonio, Huerta, Araceli M, Glasner, Jeremy D, Blattner, Fred R, Collado-Vides, Julio

“…The transcriptional network of Escherichia coli may well be the most complete experimentally characterized network of a single cell. A rule-based approach was…”
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Effect of freezing plasma at -20°C for 2 weeks on prothrombin time, activated partial thromboplastin time, dilute Russell viper venom time, activated protein C resistance, and D-dimer levels by Foshat, Michelle, Bates, Stephanie, Russo, Wendy, Huerta, Araceli, Albright, Kathleen, Giddings, Karen, Indrikovs, Alexander, Qian, You-Wen

“…To assess the impact of preanalytical variables of time and temperature on prothrombin time (PT), activated partial thromboplastin time (aPTT), dilute Russell…”
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Evidence classification of high-throughput protocols and confidence integration in RegulonDB by Weiss, Verena, Medina-Rivera, Alejandra, Huerta, Araceli M, Santos-Zavaleta, Alberto, Salgado, Heladia, Morett, Enrique, Collado-Vides, Julio

“…RegulonDB provides curated information on the transcriptional regulatory network of Escherichia coli and contains both experimental data and computationally…”
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Selection for Unequal Densities of [sigma]70 Promoter-Like Signals in Different Regions of Large Bacterial Genomes: e185 by Huerta, Araceli M, Francino, M Pilar, Morett, Enrique, Collado-Vides, Julio

“…The evolutionary processes operating in the DNA regions that participate in the regulation of gene expression are poorly understood. In Escherichia coli, we…”
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distinctive signatures of promoter regions and operon junctions across prokaryotes by Janga, Sarath Chandra, Lamboy, Warren F, Huerta, Araceli M, Moreno-Hagelsieb, Gabriel

“…Here we show that regions upstream of first transcribed genes have oligonucleotide signatures that distinguish them from regions upstream of genes in the…”
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From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coli by Thieffry, Denis, Huerta, Araceli M., Pérez-Rueda, Ernesto, Collado-Vides, Julio

“…Because a large number of molecular mechanisms involved in gene regulation have been described during the last decades, it is now becoming possible to address…”
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Selection for Unequal Densities of σ70 Promoter-Like Signals in Different Regions of Large Bacterial Genomes by Huerta, Araceli M., Francino, M. Pilar, Morett, Enrique, Collado-Vides, Julio

“…The evolutionary processes operating in the DNA regions that participate in the regulation of gene expression are poorly understood. In Escherichia coli, we…”
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Positional Conservation of Clusters of Overlapping Promoter-Like Sequences in Enterobacterial Genomes by Huerta, Araceli M., Collado-Vides, Julio, Francino, M. Pilar

“…The selective mechanisms operating in regulatory regions of bacterial genomes are poorly understood. We have previously shown that, in most bacterial genomes,…”
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Comparative Studies of Transcriptional Regulation Mechanisms in a Group of Eight Gamma-proteobacterial Genomes by Espinosa, Vladimir, González, Abel D., Vasconcelos, Ana T., Huerta, Araceli M., Collado-Vides, Julio

“…Experimental data on the Escherichia coli transcriptional regulation has enabled the construction of statistical models to predict new regulatory elements…”
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Selection for unequal densities of sigma70 promoter-like signals in different regions of large bacterial genomes by Huerta, Araceli M, Francino, M Pilar, Morett, Enrique, Collado-Vides, Julio

“…The evolutionary processes operating in the DNA regions that participate in the regulation of gene expression are poorly understood. In Escherichia coli, we…”
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GETools: gene expression tool for analysis of transcriptome experiments in E. coli by Huerta, Araceli M., Glasner, Jeremy D., Gutiérrez-Rı́os, Rosa Marı́a, Blattner, Fred R., Collado-Vides, Julio

“…Microarray methods provide global evaluation of changes in gene expression that the cell uses to adapt to different conditions. Given the rich legacy of…”
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RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units) by Gama-Castro, Socorro, Salgado, Heladia, Peralta-Gil, Martin, Santos-Zavaleta, Alberto, Muñiz-Rascado, Luis, Solano-Lira, Hilda, Jimenez-Jacinto, Verónica, Weiss, Verena, García-Sotelo, Jair S, López-Fuentes, Alejandra, Porrón-Sotelo, Liliana, Alquicira-Hernández, Shirley, Medina-Rivera, Alejandra, Martínez-Flores, Irma, Alquicira-Hernández, Kevin, Martínez-Adame, Ruth, Bonavides-Martínez, César, Miranda-Ríos, Juan, Huerta, Araceli M, Mendoza-Vargas, Alfredo, Collado-Torres, Leonardo, Taboada, Blanca, Vega-Alvarado, Leticia, Olvera, Maricela, Olvera, Leticia, Grande, Ricardo, Morett, Enrique, Collado-Vides, Julio

“…RegulonDB (http://regulondb.ccg.unam.mx/) is the primary reference database of the best-known regulatory network of any free-living organism, that of…”
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Abstract 2679: Combination of CDK 4/6 inhibitor palbociclib with rapamycin synergistically inhibits growth of hepatocellular carcinoma in preclinical models by Tiwari, Ankur, Huerta, Araceli, Bouamar, Hakim, Das, Debodipta, Cigarroa, Francisco, Sun, LuZhe

“…Introduction: The cell cycle inhibitor palbociclib has been shown to have a cytostatic effect on hepatocellular carcinoma (HCC) cells via the induction of…”
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Abstract 1046: Combination of CDK 4/6 inhibitor Palbociclib with Rapamycin synergistically inhibits the growth of hepatocellular carcinoma cells by Tiwari, Ankur, Huerta, Araceli, Bouamar, Hakim, Das, Debodipta, Cigarroa, Francisco G., Sun, LuZhe

“…Introduction: Aberrant cell-cycle regulation is common in cancer, making it an attractive therapeutic target. The cell cycle inhibitor Palbociclib has been…”
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Selection for Unequal Densities of [sigma] super(70) Promoter-Like Signals in Different Regions of Large Bacterial Genomes by Huerta, Araceli M, Francino, MPilar, Morett, Enrique, Collado-Vides, Julio

“…The evolutionary processes operating in the DNA regions that participate in the regulation of gene expression are poorly understood. In Escherichia coli, we…”
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