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Synergistic Associations in Systems ...

Watkinson, John.

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Synergistic Associations in Systems Biology.

Record Type:	Language materials, printed : Monograph/item
Title/Author:	Synergistic Associations in Systems Biology./
Author:	Watkinson, John.
Description:	119 p.
Notes:	Source: Dissertation Abstracts International, Volume: 72-06, Section: B, page: .
Contained By:	Dissertation Abstracts International72-06B.
Subject:	Biology, Bioinformatics. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3451529
ISBN:	9781124567716

Synergistic Associations in Systems Biology.
Watkinson, John.

Synergistic Associations in Systems Biology. - 119 p.

Source: Dissertation Abstracts International, Volume: 72-06, Section: B, page: .

Thesis (Ph.D.)--Columbia University, 2011.

The primary goal of this thesis is to discover multivariate interactions in high-throughput biological data. The criteria for a valid multivariate interaction is quite strict. It is required that the "whole" of the interaction demonstrate a greater association than the "sum of the parts". This phenomenon is called synergy. This concept is rigorously defined in information theoretic terms and the subtleties of its implications explored. Various methods for estimating synergy in biological settings are presented.

ISBN: 9781124567716Subjects--Topical Terms:

1018415
Biology, Bioinformatics.

Synergistic Associations in Systems Biology.
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020 $a 9781124567716
035 $a (UMI)AAI3451529
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040 $a UMI $c UMI
100 1 $a Watkinson, John. $3 752851
245 1 0 $a Synergistic Associations in Systems Biology.
300 $a 119 p.
500 $a Source: Dissertation Abstracts International, Volume: 72-06, Section: B, page: .
502 $a Thesis (Ph.D.)--Columbia University, 2011.
520 $a The primary goal of this thesis is to discover multivariate interactions in high-throughput biological data. The criteria for a valid multivariate interaction is quite strict. It is required that the "whole" of the interaction demonstrate a greater association than the "sum of the parts". This phenomenon is called synergy. This concept is rigorously defined in information theoretic terms and the subtleties of its implications explored. Various methods for estimating synergy in biological settings are presented.
520 $a Next, a gene expression data set consisting of prostate cancer samples and normal prostate tissue are used to create a "synergy network" of gene pairs with respect to the phenotype. The strongest connections in the network are validated in an independent data set. The network as well as its hub gene members could help shed light on the etiology and progression of the disease.
520 $a In a different setting, gene regulatory interactions are inferred from a compendium of E. coli gene expressiou samples. The existence of a synergistic partner interacting with a transcription factor and its putative target adds additional evidence that the transcription factor does indeed regulate the target. The method was the best-performing in the DREAM2 Genome Scale Network Challenge.
520 $a Expanding on the E. coli results, two large H. sapiens gene expression data sets consisting of ovarian cancer samples are studied. A validated interaction network is generated, and Gene Ontology enrichment is performed to find putative biological processes associated with ovarian cancer progression.
520 $a Finally, a synergy metric is defined for genotype data, called synergy disequilibrium. It is closely related to the concept of linkage disequilibrium, but directly involves a phenotype as a third variable. The method is used to characterize some well-known disease associations. The method shows real promise in discovering epistatically disease-associated pairs of loci once data sets become sufficiently large and statistically powerful.
590 $a School code: 0054.
650 4 $a Biology, Bioinformatics. $3 1018415
690 $a 0715
710 2 $a Columbia University. $3 571054
773 0 $t Dissertation Abstracts International $g 72-06B.
790 $a 0054
791 $a Ph.D.
792 $a 2011
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3451529