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List of works by Tomohiro Shimada

A novel regulator RcdA of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli

scientific article published on 8 October 2012

A structural sketch of RcdA, a transcription factor controlling the master regulator of biofilm formation

scientific article

Altered Distribution of RNA Polymerase Lacking the Omega Subunit within the Prophages along the Escherichia coli K-12 Genome.

scientific article published in January 2018

Author Correction: Regulatory Role of PlaR (YiaJ) for Plant Utilization in Escherichia coli K-12

scientific article published on 14 February 2020

Classification and strength measurement of stationary-phase promoters by use of a newly developed promoter cloning vector

scientific article published on November 2004

Conserved two-component Hik34-Rre1 module directly activates heat-stress inducible transcription of major chaperone and other genes in Synechococcus elongatus PCC 7942.

scientific article published on 20 January 2017

Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of Escherichia coli to Stationary Phase

scientific article published on 11 September 2018

Differential Regulation of rRNA and tRNA Transcription from the rRNA-tRNA Composite Operon in Escherichia coli

scientific article

Expanded roles of leucine-responsive regulatory protein in transcription regulation of the Escherichia coli genome: Genomic SELEX screening of the regulation targets

scientific article published on 15 July 2015

Expanded roles of two-component response regulator OmpR in Escherichia coli: genomic SELEX search for novel regulation targets.

scientific article

Genomic SELEX Screening of Regulatory Targets of Escherichia coli Transcription Factors

scientific article published on 01 January 2018

Growth Inhibition by External Potassium of Escherichia coli Lacking PtsN (EIIANtr) Is Caused by Potassium Limitation Mediated by YcgO.

scientific article published on 2 May 2016

Hierarchy of transcription factor network in <i>Escherichia coli</i> K-12: H-NS-mediated silencing and Anti-silencing by global regulators

scientific article published in 2021

Identification of YbhA as the pyridoxal 5'-phosphate (PLP) phosphatase in Escherichia coli: Importance of PLP homeostasis on the bacterial growth.

scientific article published on 29 November 2017

Intracellular concentrations of 65 species of transcription factors with known regulatory functions in Escherichia coli

scientific article

Involvement of Cyclic AMP Receptor Protein in Regulation of the rmf Gene Encoding the Ribosome Modulation Factor in Escherichia coli ⬇️

scientific article published on March 8, 2013

Involvement of cAMP-CRP in transcription activation and repression of the pck gene encoding PEP carboxykinase, the key enzyme of gluconeogenesis.

scientific article

Involvement of the ribose operon repressor RbsR in regulation of purine nucleotide synthesis in Escherichia coli

scientific article

Novel regulator PgrR for switch control of peptidoglycan recycling in Escherichia coli

scientific article published on 10 January 2013

Novel regulators of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli K-12

scientific article published on 10 July 2020

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

scientific article

Novel roles of cAMP receptor protein (CRP) in regulation of transport and metabolism of carbon sources.

scientific article

Regulatory Role of PlaR (YiaJ) for Plant Utilization in Escherichia coli K-12

scientific article published on 31 December 2019

Regulatory role of CsuR (YiaU) in determination of cell surface properties of Escherichia coli K-12

scientific article published in 2022

Regulatory role of XynR (YagI) in catabolism of xylonate in Escherichia coli K-12

scientific article published on 01 December 2017

RutR is the uracil/thymine-sensing master regulator of a set of genes for synthesis and degradation of pyrimidines.

scientific article published on 05 October 2007

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

scientific article published on 11 September 2013

Single-target regulators form a minor group of transcription factors in Escherichia coli K-12.

scientific article

Strength and Regulation of Seven rRNA Promoters in Escherichia coli

scientific article published on 30 December 2015

Systematic search for the Cra-binding promoters using genomic SELEX system.

scientific article

The Escherichia coli RutR transcription factor binds at targets within genes as well as intergenic regions.

scientific article

The retrograde signaling protein GUN1 regulates tetrapyrrole biosynthesis

scientific article published on 15 November 2019

The role of the omega subunit of RNA polymerase in expression of the relA gene in Escherichia coli

scientific article published in February 2007

The uncharacterized transcription factor YdhM is the regulator of the nemA gene, encoding N-ethylmaleimide reductase

scientific article published on 20 June 2008

The whole set of constitutive promoters recognized by RNA polymerase RpoD holoenzyme of Escherichia coli.

scientific article

The whole set of the constitutive promoters recognized by four minor sigma subunits of Escherichia coli RNA polymerase

scientific article published on 30 June 2017

Transcription Factor SrsR (YgfI) Is a Novel Regulator for the Stress-Response Genes in Stationary Phase in Escherichia coli K-12

scientific article published in 2022

Transcription factor CecR (YbiH) regulates a set of genes affecting the sensitivity of Escherichia coli against cefoperazone and chloramphenicol.

scientific article

Transcription factor DecR (YbaO) controls detoxification of L-cysteine in Escherichia coli

scientific article published on 19 July 2016

Transcription profile of Escherichia coli: genomic SELEX search for regulatory targets of transcription factors

scientific article published on 3 February 2016

Unprecedented high-resolution view of bacterial operon architecture revealed by RNA sequencing

scientific article

Use of a Bacterial Luciferase Monitoring System To Estimate Real-Time Dynamics of Intracellular Metabolism in Escherichia coli

scientific article published on 29 July 2016

Whole set of constitutive promoters for RpoN sigma factor and the regulatory role of its enhancer protein NtrC in Escherichia coli K-12

scientific article published in 2021

folA, a new member of the TyrR regulon in Escherichia coli K-12.

scientific article published on 8 June 2007

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