Components and mechanisms of regulation of gene expression.
@article{Yilmaz2010ComponentsAM,
title={Components and mechanisms of regulation of gene expression.},
author={Alper Yilmaz and Erich Grotewold},
journal={Methods in molecular biology},
year={2010},
volume={674},
pages={
23-32
}
}The control of gene expression is a biological process essential to all organisms. This is accomplished through the interaction of regulatory proteins with specific DNA motifs in the control regions of the genes that they regulate. Upon binding to DNA, and through specific protein-protein interactions, these regulatory proteins convey signals to the basal transcriptional machinery, containing the respective RNA polymerases, resulting in particular rates of gene expression. In eukaryotes, in…
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References
SHOWING 1-10 OF 46 REFERENCES
Core promoters: active contributors to combinatorial gene regulation.
- BiologyGenes & development
- 2001
The regulation of transcription was expected to rely exclusively on DNA-binding proteins that interact with distal promoters and enhancers, but today, this simplistic picture of the structure of core promoters for protein-coding genes has been replaced by a level of complexity that is not yet fully understood or appreciated.
Mediator – a universal complex in transcriptional regulation
- BiologyMolecular microbiology
- 2001
A model to account for the functional and evolutionary relationship between yeast and metazoan Mediators is discussed and an appendix is created, MEDB, in which information about all the S. cerevisiae Mediator subunits and their homologues in other eukaryotic cells are compiled.
The RNA polymerase II core promoter.
- BiologyAnnual review of biochemistry
- 2003
Although core promoter structure was originally thought to be invariant, a remarkable degree of diversity has become apparent and this article reviews the structural and functional diversity of the RNA polymerase II core promoter.
Mechanisms of action of transcription activation and repression domains
- BiologyCellular and Molecular Life Sciences CMLS
- 2000
This review will focus on the current understanding of the nature of transcriptional regulatory domains and their targets in the transcription machinery.
TFCONES: A database of vertebrate transcription factor-encoding genes and their associated conserved noncoding elements
- BiologyBMC Genomics
- 2007
The conserved noncoding elements identified in TFCONES represent a catalog of highly prioritized putative cis-regulatory elements of TF-encoding genes and are candidates for functional assay.
PlnTFDB: an integrative plant transcription factor database
- BiologyBMC Bioinformatics
- 2006
An integrative plant transcription factor database that provides a web interface to access large (close to complete) sets of transcription factors of several plant species, currently encompassing Arabidopsis thaliana, Populus trichocarpa, Oryza sativa, Chlamydomonas reinhardtii and Ostreococcus tauri.
Alternative Sigma Factors and Their Roles in Bacterial Virulence
- BiologyMicrobiology and Molecular Biology Reviews
- 2005
This work presents several examples of alternative sigma factors that have been shown to contribute to virulence in at least one organism and describes how these proteins can contribute both directly and indirectly to bacterial virulence.
AGRIS and AtRegNet. A Platform to Link cis-Regulatory Elements and Transcription Factors into Regulatory Networks1[W][OA]
- Environmental Science, BiologyPlant Physiology
- 2006
The Arabidopsis Gene Regulatory Information Server (AGRIS) is developed, which provides the scientific community with a platform to establish regulatory networks at the genome level.

