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Tiger HRE Finder - A Tool for Identification of Hormone Receptor Binding Sites in Query Sequences
Hangzhou, Zhejiang, China June 20-June 24
DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/IMSCCS.2006.1342006 First International Multi-Sympos ...
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Maria Stepanova, Lin Feng, Valerie C.-L. Lin, "Tiger HRE Finder - A Tool for Identification of Hormone Receptor Binding Sites in Query Sequences," Computer and Computational Sciences, International Multi-Symposiums on, vol. 1, pp. 22-26, 2006 First International Multi-Symposiums on Computer and Computational Sciences, 2006.
 
 
BibTex
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@article{ 10.1109/IMSCCS.2006.134,
author = {Maria Stepanova and Lin Feng and Valerie C.-L. Lin},
title = {Tiger HRE Finder - A Tool for Identification of Hormone Receptor Binding Sites in Query Sequences},
journal ={Computer and Computational Sciences, International Multi-Symposiums on},
volume = {1},
year = {2006},
isbn = {0-7695-2581-4},
pages = {22-26},
doi = {http://doi.ieeecomputersociety.org/10.1109/IMSCCS.2006.134},
publisher = {IEEE Computer Society},
address = {Los Alamitos, CA, USA},
}
 
 
RefWorks Procite/RefMan/Endnote
x 
 
TY - CONF
JO - Computer and Computational Sciences, International Multi-Symposiums on
TI - Tiger HRE Finder - A Tool for Identification of Hormone Receptor Binding Sites in Query Sequences
SN - 0-7695-2581-4
SP22
EP26
A1 - Maria Stepanova,
A1 - Lin Feng,
A1 - Valerie C.-L. Lin,
PY - 2006
KW - null
VL - 1
JA - Computer and Computational Sciences, International Multi-Symposiums on
ER -
 
Maria Stepanova, Nanyang Technological University, Singapore
Lin Feng, Nanyang Technological University, Singapore
Valerie C.-L. Lin, Nanyang Technological University, Singapore
Prediction of transcription factor binding sites is a crucial challenge in investigation of mechanisms of gene expression regulation. Due to high diversity of different types of transcription factors and their DNA binding preferences, it is difficult to establish an accurate model for recognition of functional regulatory elements in promoters of eukaryotic genes.

Here we present a tool for precise prediction of a large group of transcription factor binding sites - steroid hormone response elements. The tool uses large training set of experimentally confirmed steroid hormone response elements, and adapts sequence-based statistic method of position weight matrix, for identification of the binding sites of the query sequences. Accuracy level (considering trade-off sensitivity vs. specificity) is a user-defined parameter and a table of correspondence of the above values is collected from a number of independent tests. The tool is freely available for academic and non-profit use http://birc.ntu.edu.sg/~pmaria.

Citation:
Maria Stepanova, Lin Feng, Valerie C.-L. Lin, "Tiger HRE Finder - A Tool for Identification of Hormone Receptor Binding Sites in Query Sequences," imsccs, vol. 1, pp.22-26, 2006 First International Multi-Symposiums on Computer and Computational Sciences, 2006
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