about
Operons in Escherichia coli: genomic analyses and predictionsThe partitioned Rhizobium etli genome: genetic and metabolic redundancy in seven interacting repliconsEcoCyc: a comprehensive database of Escherichia coli biologyRegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomesWith the finished human genome in hand, what next?Nebulon: a system for the inference of functional relationships of gene products from the rearrangement of predicted operons.EcoCyc: a comprehensive database resource for Escherichia coliThe comprehensive updated regulatory network of Escherichia coli K-12.The complete genome sequence of Escherichia coli K-12The BioPAX community standard for pathway data sharingMinimum information requested in the annotation of biochemical models (MIRIAM)A comparative genomics approach to prediction of new members of regulonsMetabolic reconstruction and modeling of nitrogen fixation in Rhizobium etliGrammatical model of the regulation of gene expressionRegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.Distribution of minigenes in the bacteriophage lambda chromosome.TFmodeller: comparative modelling of protein-DNA complexes.COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia.In silico clustering of Salmonella global gene expression data reveals novel genes co-regulated with the SPI-1 virulence genes through HilD.Selection for unequal densities of sigma70 promoter-like signals in different regions of large bacterial genomes.Identification of regulatory network topological units coordinating the genome-wide transcriptional response to glucose in Escherichia coli.Automatic reconstruction of a bacterial regulatory network using Natural Language ProcessingDevelopment of genomic sciences in Mexico: a good start and a long way to go.Impact of Transcription Units rearrangement on the evolution of the regulatory network of gamma-proteobacteria.Prediction of TF target sites based on atomistic models of protein-DNA complexes.On the trail of EHEC/EAEC--unraveling the gene regulatory networks of human pathogenic Escherichia coli bacteria.DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli.From sequence to dynamics: the effects of transcription factor and polymerase concentration changes on activated and repressed promoters.Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli.Effect of genomic distance on coexpression of coregulated genes in E. coli.Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis.Strategies towards digital and semi-automated curation in RegulonDB.Promoter interference in a bacteriophage lambda control region: effects of a range of interpromoter distancesEcoCyc: fusing model organism databases with systems biology.Assisted curation of regulatory interactions and growth conditions of OxyR in E. coli K-12.Theoretical and empirical quality assessment of transcription factor-binding motifs.The EcoCyc Database.RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation.Transcription factors in Escherichia coli prefer the holo conformation
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