Intracellular Concentrations of 65 Species of Transcription Factors with Known Regulatory Functions in Escherichia coli

Roles of cell division control factor SdiA: recognition of quorum sensing signals and modulation of transcription regulation targets

(2014) Tomohiro Shimada et al.   GENES TO CELLS

The Whole Set of Constitutive Promoters Recognized by RNA Polymerase RpoD Holoenzyme of Escherichia coli

(2014) Tomohiro Shimada et al.   PLoS One

Screening of promoter-specific transcription factors: multiple regulators for the sdiA gene involved in cell division control and quorum sensing

(2013) K. Shimada et al.   MICROBIOLOGY-SGM

Bacterial adaptation to cold

(2013) C. Barria et al.   MICROBIOLOGY-SGM

Transcription Factors in Escherichia coli Prefer the Holo Conformation

(2013) Yalbi Itzel Balderas-Martínez et al.   PLoS One

RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more

(2012) Heladia Salgado et al.   NUCLEIC ACIDS RESEARCH

EcoCyc: fusing model organism databases with systems biology

(2012) Ingrid M. Keseler et al.   NUCLEIC ACIDS RESEARCH

A Novel Role of the PrpR as a Transcription Factor Involved in the Regulation of Methylcitrate Pathway in Mycobacterium tuberculosis

(2012) Paweł Masiewicz et al.   PLoS One

Prokaryotic genome regulation: A revolutionary paradigm

(2012) Akira ISHIHAMA   PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES

Endogenous Protein S-Nitrosylation in E. coli: Regulation by OxyR

(2012) D. Seth et al.   SCIENCE

Efficient and robust RNA-seq process for cultured bacteria and complex community transcriptomes

(2012) Georgia Giannoukos et al.   GENOME BIOLOGY

A novel regulator RcdA of thecsgDgene encoding the master regulator of biofilm formation inEscherichia coli

(2012) Tomohiro Shimada et al.   MicrobiologyOpen

Genome-Wide Identification of Transcription Start Sites Yields a Novel Thermosensing RNA and New Cyclic AMP Receptor Protein-Regulated Genes in Escherichia coli

(2011) R. Raghavan et al.   JOURNAL OF BACTERIOLOGY

Novel roles of LeuO in transcription regulation of E. coli genome: antagonistic interplay with the universal silencer H-NS

(2011) Tomohiro Shimada et al.   MOLECULAR MICROBIOLOGY

Nε−Lysine Acetylation of a Bacterial Transcription Factor Inhibits Its DNA-Binding Activity

(2011) Sandy Thao et al.   PLoS One

Novel Roles of cAMP Receptor Protein (CRP) in Regulation of Transport and Metabolism of Carbon Sources

(2011) Tomohiro Shimada et al.   PLoS One

Regulation of DnaA Assembly and Activity: Taking Directions from the Genome

(2010) Alan C. Leonard et al.   Annual Review of Microbiology

Effects of nucleoid-associated proteins on bacterial chromosome structure and gene expression

(2010) Douglas F Browning et al.   CURRENT OPINION IN MICROBIOLOGY

Novel Members of the Cra Regulon Involved in Carbon Metabolism in Escherichia coli

(2010) T. Shimada et al.   JOURNAL OF BACTERIOLOGY

Evolution ofEscherichia colifor Growth at High Temperatures

(2010) Birgit Rudolph et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions

(2010) Jun Teramoto et al.   NUCLEIC ACIDS RESEARCH

Widespread Antisense Transcription in Escherichia coli

(2010) J. E. Dornenburg et al.   mBio

Regulator Trafficking on Bacterial Transcription Units In Vivo

(2009) Rachel A. Mooney et al.   MOLECULAR CELL

The transcription unit architecture of the Escherichia coli genome

(2009) Byung-Kwan Cho et al.   NATURE BIOTECHNOLOGY

Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tracts

(2008) B.-K. Cho et al.   GENOME RESEARCH

Convergence of Molecular, Modeling, and Systems Approaches for an Understanding of the Escherichia coli Heat Shock Response

(2008) E. Guisbert et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Low temperature (23  C) increases expression of biofilm-, cold-shock- and RpoS-dependent genes in Escherichia coli K-12

(2008) C. A. White-Ziegler et al.   MICROBIOLOGY-SGM