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Computer modeling of promoter organization as a tool to study transcriptional coregulation
Author(s) -
Werner Thomas,
Fessele Sabine,
Maier Holge,
Nelson Peter J.
Publication year - 2003
Publication title -
the faseb journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.709
H-Index - 277
eISSN - 1530-6860
pISSN - 0892-6638
DOI - 10.1096/fj.02-0955rev
Subject(s) - enhancer , promoter , gene , biology , regulatory sequence , genetics , transcription factor , computational biology , regulation of gene expression , dna binding site , transcriptional regulation , genomic organization , transcription (linguistics) , cis regulatory module , upstream activating sequence , gene expression , genome , linguistics , philosophy
Understanding how the regulation of gene networks is orchestrated is an important challenge for characterizing complex biological processes. Gene transcription is regulated in part by nuclear factors that recognize short DNA sequence motifs, called transcription factor binding sites, in most cases located upstream of the gene coding sequence in promoter and enhancer regions. Genes expressed in the same tissue under similar conditions often share a common organization of at least some of these regulatory binding elements. In this way the organization of promoter motifs represents a “footprint” of the transcriptional regulatory mechanisms at work in a specific biologic context and thus provides information about signal and tissue specific control of expression. Analysis of promoters for organizational features as demonstrated here provides a crucial link between the static nucleotide sequence of the genome and the dynamic aspects of gene regulation and expression.—Werner, T., Fessele, S., Maier, H ., Nelson, P. J. Computer modeling of promoter organization as a tool to study transcriptional coregulation. FASEB J. 17, 1228–1237 (2003)