Published in Mol Microbiol on July 23, 2012
Genome-scale analysis of escherichia coli FNR reveals complex features of transcription factor binding. PLoS Genet (2013) 1.28
Integrated circuits: how transcriptional silencing and counter-silencing facilitate bacterial evolution. Curr Opin Microbiol (2014) 0.89
Vibrio cholerae ToxR downregulates virulence factor production in response to cyclo(Phe-Pro). MBio (2013) 0.88
Expanded target and cofactor repertoire for the transcriptional activator LysM from Sulfolobus. Nucleic Acids Res (2013) 0.87
The coming of age of the LeuO regulator. Mol Microbiol (2012) 0.83
Identification of HilD-regulated genes in Salmonella enterica serovar Typhimurium. J Bacteriol (2013) 0.83
Evolutionary expansion of a regulatory network by counter-silencing. Nat Commun (2014) 0.82
The Salmonella enterica serovar Typhi LeuO global regulator forms tetramers: residues involved in oligomerization, DNA binding, and transcriptional regulation. J Bacteriol (2014) 0.81
Role of intragenic binding of cAMP responsive protein (CRP) in regulation of the succinate dehydrogenase genes Rv0249c-Rv0247c in TB complex mycobacteria. Nucleic Acids Res (2015) 0.79
The Subtleties and Contrasts of the LeuO Regulator in Salmonella Typhi: Implications in the Immune Response. Front Immunol (2014) 0.78
"Non-canonical protein-DNA interactions identified by ChIP are not artifacts": response. BMC Genomics (2013) 0.77
YjjQ Represses Transcription of flhDC and Additional Loci in Escherichia coli. J Bacteriol (2015) 0.77
Transcriptional regulation of cpsQ-mfpABC and mfpABC by CalR in Vibrio parahaemolyticus. Microbiologyopen (2017) 0.76
Correlation of Antagonistic Regulation of leuO Transcription with the Cellular Levels of BglJ-RcsB and LeuO in Escherichia coli. Front Cell Infect Microbiol (2016) 0.75
DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression. Biophys Rev (2016) 0.75
OxyR-dependent formation of DNA methylation patterns in OpvABOFF and OpvABON cell lineages of Salmonella enterica. Nucleic Acids Res (2015) 0.75
DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression. Biophys Rev (2016) 0.75
The Global Regulators Lrp, LeuO, and HexA Control Secondary Metabolism in Entomopathogenic Bacteria. Front Microbiol (2017) 0.75
RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res (2007) 85.81
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A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome. Genome Res (2003) 5.73
Extensive genomic duplication during early chordate evolution. Nat Genet (2002) 5.30
InnateDB: facilitating systems-level analyses of the mammalian innate immune response. Mol Syst Biol (2008) 4.61
The Genomic Standards Consortium. PLoS Biol (2011) 3.99
Bacterial nucleoid-associated proteins, nucleoid structure and gene expression. Nat Rev Microbiol (2010) 3.42
Comparison of 61 sequenced Escherichia coli genomes. Microb Ecol (2010) 2.96
N6-methyl-adenine: an epigenetic signal for DNA-protein interactions. Nat Rev Microbiol (2006) 2.75
Origin of replication in circular prokaryotic chromosomes. Environ Microbiol (2006) 2.55
The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. Proc Natl Acad Sci U S A (2012) 2.39
Modulation of the TLR-mediated inflammatory response by the endogenous human host defense peptide LL-37. J Immunol (2006) 2.32
Loss of Hfq activates the sigmaE-dependent envelope stress response in Salmonella enterica. Mol Microbiol (2006) 1.88
Ten years of bacterial genome sequencing: comparative-genomics-based discoveries. Funct Integr Genomics (2006) 1.86
Anti-silencing: overcoming H-NS-mediated repression of transcription in Gram-negative enteric bacteria. Microbiology (2008) 1.84
A global role for Fis in the transcriptional control of metabolism and type III secretion in Salmonella enterica serovar Typhimurium. Microbiology (2004) 1.84
An H-NS-like stealth protein aids horizontal DNA transmission in bacteria. Science (2007) 1.83
The genome BLASTatlas-a GeneWiz extension for visualization of whole-genome homology. Mol Biosyst (2008) 1.79
The complete genome sequence and analysis of the epsilonproteobacterium Arcobacter butzleri. PLoS One (2007) 1.78
The Salmonella enterica pan-genome. Microb Ecol (2011) 1.76
The complex relationship of gene duplication and essentiality. Trends Genet (2009) 1.76
Analysis of intra-genomic GC content homogeneity within prokaryotes. BMC Genomics (2010) 1.71
Altered retinal microRNA expression profile in a mouse model of retinitis pigmentosa. Genome Biol (2007) 1.67
Genome Update: proteome comparisons. Microbiology (2005) 1.66
The extracellular leucine-rich repeat superfamily; a comparative survey and analysis of evolutionary relationships and expression patterns. BMC Genomics (2007) 1.63
Characterization of probiotic Escherichia coli isolates with a novel pan-genome microarray. Genome Biol (2007) 1.63
Genomic taxonomy of Vibrios. BMC Evol Biol (2009) 1.62
CBS Genome Atlas Database: a dynamic storage for bioinformatic results and sequence data. Bioinformatics (2004) 1.62
A common haplotype of the LBP gene predisposes to severe sepsis. Crit Care Med (2009) 1.55
A CXCL2 polymorphism is associated with better outcomes in patients with severe sepsis. Crit Care Med (2007) 1.54
The integration host factor (IHF) integrates stationary-phase and virulence gene expression in Salmonella enterica serovar Typhimurium. Mol Microbiol (2006) 1.54
Benchmarking of methods for genomic taxonomy. J Clin Microbiol (2014) 1.51
Regulation of Salmonella enterica pathogenicity island 1 (SPI-1) by the LysR-type regulator LeuO. Mol Microbiol (2014) 1.50
Reliability and applications of statistical methods based on oligonucleotide frequencies in bacterial and archaeal genomes. BMC Genomics (2008) 1.46
Microbial comparative pan-genomics using binomial mixture models. BMC Genomics (2009) 1.46
Global regulation of virulence and the stress response by CsrA in the highly adapted human gastric pathogen Helicobacter pylori. Mol Microbiol (2004) 1.45
Standard operating procedure for computing pangenome trees. Stand Genomic Sci (2010) 1.45
Genomic characterization of Campylobacter jejuni strain M1. PLoS One (2010) 1.44
Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes. BMC Genomics (2012) 1.43
Molecular analysis of the emergence of pandemic Vibrio parahaemolyticus. BMC Microbiol (2008) 1.40
Recognition of heptameric seed sequence underlies multi-target regulation by RybB small RNA in Salmonella enterica. Mol Microbiol (2010) 1.34
The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571. BMC Genomics (2008) 1.32
A common microRNA signature in mouse models of retinal degeneration. Exp Eye Res (2008) 1.30
An extended role for the nucleoid structuring protein H-NS in the virulence gene regulatory cascade of Shigella flexneri. Mol Microbiol (2003) 1.28
An environmental signature for 323 microbial genomes based on codon adaptation indices. Genome Biol (2006) 1.28
A closer look at bacteroides: phylogenetic relationship and genomic implications of a life in the human gut. Microb Ecol (2011) 1.27
Repair of DNA damage induced by bile salts in Salmonella enterica. Genetics (2006) 1.27
Insights from 20 years of bacterial genome sequencing. Funct Integr Genomics (2015) 1.27
DNA adenine methylation regulates virulence gene expression in Salmonella enterica serovar Typhimurium. J Bacteriol (2006) 1.25
Role for Salmonella enterica enterobacterial common antigen in bile resistance and virulence. J Bacteriol (2003) 1.25
RpoD promoters in Campylobacter jejuni exhibit a strong periodic signal instead of a -35 box. J Mol Biol (2003) 1.25
Regulation of capsule synthesis and cell motility in Salmonella enterica by the essential gene igaA. Genetics (2002) 1.24
Genomic variation in Salmonella enterica core genes for epidemiological typing. BMC Genomics (2012) 1.23
Competitive interaction of the OxyR DNA-binding protein and the Dam methylase at the antigen 43 gene regulatory region in Escherichia coli. Mol Microbiol (2002) 1.22
Bile-induced DNA damage in Salmonella enterica. Genetics (2004) 1.22
Envelope instability in DNA adenine methylase mutants of Salmonella enterica. Microbiology (2002) 1.22
Genome-wide analysis of the H-NS and Sfh regulatory networks in Salmonella Typhimurium identifies a plasmid-encoded transcription silencing mechanism. Mol Microbiol (2010) 1.21
Clocks and switches: bacterial gene regulation by DNA adenine methylation. Curr Opin Microbiol (2008) 1.19
Investigations of oligonucleotide usage variance within and between prokaryotes. PLoS Comput Biol (2008) 1.18
ProbeLynx: a tool for updating the association of microarray probes to genes. Nucleic Acids Res (2004) 1.17
Conjugal transfer of the virulence plasmid of Salmonella enterica is regulated by the leucine-responsive regulatory protein and DNA adenine methylation. Mol Microbiol (2002) 1.17
Compensatory evolution of gene regulation in response to stress by Escherichia coli lacking RpoS. PLoS Genet (2009) 1.15
The sigma54 regulon (sigmulon) of Pseudomonas putida. Environ Microbiol (2003) 1.14
On the origins of a Vibrio species. Microb Ecol (2010) 1.13
H-NS antagonism in Shigella flexneri by VirB, a virulence gene transcription regulator that is closely related to plasmid partition factors. J Bacteriol (2007) 1.11
GeneWiz browser: An Interactive Tool for Visualizing Sequenced Chromosomes. Stand Genomic Sci (2009) 1.10
Regulation of traJ transcription in the Salmonella virulence plasmid by strand-specific DNA adenine hemimethylation. Mol Microbiol (2005) 1.10
Repression of the RcsC-YojN-RcsB phosphorelay by the IgaA protein is a requisite for Salmonella virulence. Mol Microbiol (2004) 1.10
Identification of putative noncoding RNA genes in the Burkholderia cenocepacia J2315 genome. FEMS Microbiol Lett (2007) 1.09
Role of the RecBCD recombination pathway in Salmonella virulence. J Bacteriol (2002) 1.09
Three-way interactions among the Sfh, StpA and H-NS nucleoid-structuring proteins of Shigella flexneri 2a strain 2457T. Mol Microbiol (2003) 1.08
Rcs and PhoPQ regulatory overlap in the control of Salmonella enterica virulence. J Bacteriol (2007) 1.07
Design of a seven-genome Escherichia coli microarray for comparative genomic profiling. J Bacteriol (2006) 1.07
Comparative genomics of Bifidobacterium, Lactobacillus and related probiotic genera. Microb Ecol (2011) 1.07
The effect of mobile element IS10 on experimental regulatory evolution in Escherichia coli. Mol Biol Evol (2010) 1.07
Contribution of phenotypic heterogeneity to adaptive antibiotic resistance. Proc Natl Acad Sci U S A (2013) 1.07
Bovine and human cathelicidin cationic host defense peptides similarly suppress transcriptional responses to bacterial lipopolysaccharide. J Leukoc Biol (2006) 1.07
Regulation of the Salmonella enterica std fimbrial operon by DNA adenine methylation, SeqA, and HdfR. J Bacteriol (2008) 1.06
Compliance with a sepsis bundle and its effect on intensive care unit mortality in surgical septic shock patients. J Trauma (2010) 1.06
IS200: an old and still bacterial transposon. Int Microbiol (2004) 1.06
Molecular dissection of VirB, a key regulator of the virulence cascade of Shigella flexneri. J Biol Chem (2002) 1.05
Use of mixed infections to study cell invasion and intracellular proliferation of Salmonella enterica in eukaryotic cell cultures. J Microbiol Methods (2004) 1.05
In vivo DNA-binding and oligomerization properties of the Shigella flexneri AraC-like transcriptional regulator VirF as identified by random and site-specific mutagenesis. J Bacteriol (2002) 1.05
Comparative transcript profiling of Candida albicans and Candida dubliniensis identifies SFL2, a C. albicans gene required for virulence in a reconstituted epithelial infection model. Eukaryot Cell (2009) 1.05
Chromatin architecture and gene expression in Escherichia coli. Genome Biol (2004) 1.05
The TNFalpha receptor TNFRSF1A and genes encoding the amiloride-sensitive sodium channel ENaC as modulators in cystic fibrosis. Hum Genet (2006) 1.05
From essential to persistent genes: a functional approach to constructing synthetic life. Trends Genet (2012) 1.04
The macromolecule with antimicrobial activity synthesized by Pseudoalteromonas luteoviolacea strains is an L-amino acid oxidase. Appl Microbiol Biotechnol (2008) 1.04
Adaptation and preadaptation of Salmonella enterica to Bile. PLoS Genet (2012) 1.03
DNA supercoiling is differentially regulated by environmental factors and FIS in Escherichia coli and Salmonella enterica. Mol Microbiol (2011) 1.03
The origin and evolution of human pathogens. Mol Microbiol (2005) 1.03
Genome update: distribution of two-component transduction systems in 250 bacterial genomes. Microbiology (2005) 1.02
A fundamental regulatory mechanism operating through OmpR and DNA topology controls expression of Salmonella pathogenicity islands SPI-1 and SPI-2. PLoS Genet (2012) 1.00
Global gene expression and systems biology analysis of bovine monocyte-derived macrophages in response to in vitro challenge with Mycobacterium bovis. PLoS One (2012) 0.99