Extracting regulatory signals from DNA sequences using syntactic pattern discovery

(cont.) algorithm was validated on synthetic as well as real datasets. When tested on a set of 30 well-studied regulons in Escherichia Coli, with known instances of regulatory motifs collected from biological literature, the algorithm showed, in 14 cases, a high sensitivity and specificity of 70% and 80%, respectively. TABS was shown to perform better than two other popular state-of-the-art motif-finding algorithms. In addition, its applicability on synthetic microarray-like data was demonstrated. Several significant novel motifs detected by the algorithm that form good targets for investigation of regulatory function by biological experiments were reported.

Department dc:contributor.department

Massachusetts Institute of Technology. Dept. of Chemical Engineering.

Grantor dc:publisher

Massachusetts Institute of Technology

Year dc:date.issued

2004

Author dc:creator

• Gupta, Vipin, 1978-

Advisor dc:contributor.advisor

• Gregory Stephanopoulos.

• Chemical Engineering.

Statement dc:rights

• M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission.

Licence dc:rights.uri

• http://dspace.mit.edu/handle/1721.1/7582

Language dc:language.iso

en_US

Handle dc:identifier.uri

http://hdl.handle.net/1721.1/28847

OAI identifier oai:identifier

oai:dspace.mit.edu:1721.1/28847