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Frequency distribution of TATA box and extension sequences on human promoters

Shi, Wei and Zhou, Wanlei 2006, Frequency distribution of TATA box and extension sequences on human promoters, BMC bioinformatics, vol. 7, no. Supp 4, pp. 1-12.

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Title Frequency distribution of TATA box and extension sequences on human promoters
Author(s) Shi, Wei
Zhou, Wanlei
Journal name BMC bioinformatics
Volume number 7
Issue number Supp 4
Start page 1
End page 12
Publisher BioMed Central
Place of publication London, England
Publication date 2006-12-12
ISSN 1471-2105
Keyword(s) drosophila melanogaster
frequency analysis
gene frequency
housekeeping gene
sequence analysis
species distribution
TATA box
tissue specificity
zebra fish
danio rerio
mus
Summary TATA box is one of the most important transcription factor binding sites. But the exact sequences of TATA box are still not very clear yet. In this study, we conducted a dedicated analysis on the frequency distribution of TATA Box and its extension sequences on human promoters. Sixteen TATA elements derived from TATA Box motif, TATAWAWN, were classified into three distribution patterns: peak, bottom-peak and bottom. Fourteen TATA extension sequences (up to two base extensions) were predicted to be the new TATA Box elements because of their high motif factors, which indicate their statistical significance. Statistical analysis on the promoters of mouse, zebrafish and drosophila melanogaster verified seven of these elements. It was also observed that the distribution of TATA elements on the promoters of housekeeping genes are very similar with their distribution on the promoters of tissue specific genes in human.
Notes This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Language eng
Field of Research 080702 Health Informatics
HERDC Research category C1 Refereed article in a scholarly journal
ERA Research output type C Journal article
Copyright notice ©2006, Shi and Zhou; licensee BioMed Central Ltd
Persistent URL http://hdl.handle.net/10536/DRO/DU:30003891

Document type: Journal Article
Collections: School of Engineering and Information Technology
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