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Development and application of compu...

The Johns Hopkins University.

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Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies.

Record Type:	Language materials, printed : Monograph/item
Title/Author:	Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies./
Author:	Kohler, Jared R.
Description:	218 p.
Notes:	Adviser: David J. Cutler.
Contained By:	Dissertation Abstracts International69-12B.
Subject:	Biology, Biostatistics. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoeng/servlet/advanced?query=3339857
ISBN:	9780549938309

Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies.
Kohler, Jared R.

Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies. - 218 p.

Adviser: David J. Cutler.

Thesis (Ph.D.)--The Johns Hopkins University, 2009.

Copy number variation (CNV) has long been known to play a role in rare human disease such as Down syndrome, chr22 deletion syndrome and a number of nervous system disorders. The impact of CNV on complex disease etiology, however, is largely undetermined, and the contribution of CNV to non-disease genetic diversity also remains uncertain. Many techniques exist to search for CNV in genetic data. Unfortunately, each of these technologies is limited in its ability to assess CNV on a genome-wide scale, either by resolution, time, cost, or some combination thereof. At the same time, genotyping technologies have become relatively cheap, and SNP genotyping studies are now commonplace in genetic research. Addressing the contribution of CNV to disease is complicated as the difficulties involved in CNV discovery are compounded by the problems underlying CNV association testing. Developing methods to test CNV for association with disease was recently described as a pressing need. Our goal was to develop a set of computational tools capable of harnessing the information from SNP genotyping arrays in order to not only discover CNV, in this case deletions specifically, but also to then test the discovered deletions for disease association. To this end, we developed a likelihood-based framework that forms the foundation of our computer programs Microdel and Microdel. v2, which are described in detail here. These programs have been thoroughly evaluated in simulation, and applied on real data sets to assess the contribution of microdeletions to both disease and non-disease genetic diversity.

ISBN: 9780549938309Subjects--Topical Terms:

1018416
Biology, Biostatistics.

Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies.
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020 $a 9780549938309
035 $a (UMI)AAI3339857
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100 1 $a Kohler, Jared R. $3 1020917
245 1 0 $a Development and application of computational tools to simultaneously discover and test deletions for disease association in SNP genotyping studies.
300 $a 218 p.
500 $a Adviser: David J. Cutler.
500 $a Source: Dissertation Abstracts International, Volume: 69-12, Section: B, page: 7267.
502 $a Thesis (Ph.D.)--The Johns Hopkins University, 2009.
520 $a Copy number variation (CNV) has long been known to play a role in rare human disease such as Down syndrome, chr22 deletion syndrome and a number of nervous system disorders. The impact of CNV on complex disease etiology, however, is largely undetermined, and the contribution of CNV to non-disease genetic diversity also remains uncertain. Many techniques exist to search for CNV in genetic data. Unfortunately, each of these technologies is limited in its ability to assess CNV on a genome-wide scale, either by resolution, time, cost, or some combination thereof. At the same time, genotyping technologies have become relatively cheap, and SNP genotyping studies are now commonplace in genetic research. Addressing the contribution of CNV to disease is complicated as the difficulties involved in CNV discovery are compounded by the problems underlying CNV association testing. Developing methods to test CNV for association with disease was recently described as a pressing need. Our goal was to develop a set of computational tools capable of harnessing the information from SNP genotyping arrays in order to not only discover CNV, in this case deletions specifically, but also to then test the discovered deletions for disease association. To this end, we developed a likelihood-based framework that forms the foundation of our computer programs Microdel and Microdel. v2, which are described in detail here. These programs have been thoroughly evaluated in simulation, and applied on real data sets to assess the contribution of microdeletions to both disease and non-disease genetic diversity.
590 $a School code: 0098.
650 4 $a Biology, Biostatistics. $3 1018416
650 4 $a Biology, Genetics. $3 1017730
690 $a 0308
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710 2 $a The Johns Hopkins University. $3 1017431
773 0 $t Dissertation Abstracts International $g 69-12B.
790 $a 0098
790 1 0 $a Cutler, David J., $e advisor
791 $a Ph.D.
792 $a 2009
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoeng/servlet/advanced?query=3339857