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Detecting gene regulation.

O'Flanagan, Ruadhan.

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Detecting gene regulation.

Record Type:	Electronic resources : Monograph/item
Title/Author:	Detecting gene regulation./
Author:	O'Flanagan, Ruadhan.
Description:	72 p.
Notes:	Source: Dissertation Abstracts International, Volume: 66-11, Section: B, page: 5857.
Contained By:	Dissertation Abstracts International66-11B.
Subject:	Biophysics, General. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3195732
ISBN:	9780542412189

Detecting gene regulation.
O'Flanagan, Ruadhan.

Detecting gene regulation. - 72 p.

Source: Dissertation Abstracts International, Volume: 66-11, Section: B, page: 5857.

Thesis (Ph.D.)--Rutgers The State University of New Jersey - New Brunswick, 2005.

In order to understand the program which controls the behavior of a living cell, it is necessary to determine the circumstances under which specific proteins will be produced. Control of protein production is partially achieved through transcription regulation, which involves a modification of the rate of production of the messenger RNA which encodes that protein. Such regulation is typically mediated by another protein, known as a transcription factor, which binds to a sequence of nucleotides upstream of the regulated gene. The development of techniques to identify and characterize transcription factor binding sites is therefore one of the key steps involved in uncovering the programming which governs cellular behavior and functioning. When a protein is known to bind to a specific set of sites, the characterization of the binding specificity of that protein in terms of the free energy of binding can be most easily accomplished using a machine-learning algorithm related to the support vector machine. The algorithm is here extended to take account of dinucleotide effects which arise due to the deformation of the DNA during protein binding. The incorporation of data supplementary to the binding specificity of the protein, such as data describing the levels of expression of given proteins in the presence or absence of the transcription factor, is also considered here, to provide a general method of examining, through sequence specificity and additional data, how the regulation of a gene by a given transcription factor can be determined.

ISBN: 9780542412189Subjects--Topical Terms:

1019105
Biophysics, General.

Detecting gene regulation.
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245 1 0 $a Detecting gene regulation.
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500 $a Source: Dissertation Abstracts International, Volume: 66-11, Section: B, page: 5857.
500 $a Director: Anirvan Sengupta.
502 $a Thesis (Ph.D.)--Rutgers The State University of New Jersey - New Brunswick, 2005.
520 $a In order to understand the program which controls the behavior of a living cell, it is necessary to determine the circumstances under which specific proteins will be produced. Control of protein production is partially achieved through transcription regulation, which involves a modification of the rate of production of the messenger RNA which encodes that protein. Such regulation is typically mediated by another protein, known as a transcription factor, which binds to a sequence of nucleotides upstream of the regulated gene. The development of techniques to identify and characterize transcription factor binding sites is therefore one of the key steps involved in uncovering the programming which governs cellular behavior and functioning. When a protein is known to bind to a specific set of sites, the characterization of the binding specificity of that protein in terms of the free energy of binding can be most easily accomplished using a machine-learning algorithm related to the support vector machine. The algorithm is here extended to take account of dinucleotide effects which arise due to the deformation of the DNA during protein binding. The incorporation of data supplementary to the binding specificity of the protein, such as data describing the levels of expression of given proteins in the presence or absence of the transcription factor, is also considered here, to provide a general method of examining, through sequence specificity and additional data, how the regulation of a gene by a given transcription factor can be determined.
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