| Integration of genetic and genomic methods for identification of genes and gene variants encoding QTLs in the nonhuman primate. | |
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MedLine Citation:
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PMID: 19596448 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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We have developed an integrated approach, using genetic and genomic methods, in conjunction with resources from the Southwest National Primate Research Center (SNPRC) baboon colony, for the identification of genes and their functional variants that encode quantitative trait loci (QTL). In addition, we use comparative genomic methods to overcome the paucity of baboon specific reagents and to augment translation of our findings in a nonhuman primate (NHP) to the human population. We are using the baboon as a model to study the genetics of cardiovascular disease (CVD). A key step for understanding gene-environment interactions in cardiovascular disease is the identification of genes and gene variants that influence CVD phenotypes. We have developed a sequential methodology that takes advantage of the SNPRC pedigreed baboon colony, the annotated human genome, and current genomic and bioinformatic tools. The process of functional polymorphism identification for genes encoding QTLs involves comparison of expression profiles for genes and predicted genes in the genomic region of the QTL for individuals discordant for the phenotypic trait mapping to the QTL. After comparison, genes of interest are prioritized, and functional polymorphisms are identified in candidate genes by genotyping and quantitative trait nucleotide analysis. This approach reduces the time and labor necessary to prioritize and identify genes and their polymorphisms influencing variation in a quantitative trait compared with traditional positional cloning methods. |
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Authors:
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Laura A Cox; Jeremy Glenn; Simon Ascher; Shifra Birnbaum; John L VandeBerg |
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Publication Detail:
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Type: Journal Article; Research Support, N.I.H., Extramural Date: 2009-07-09 |
Journal Detail:
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Title: Methods (San Diego, Calif.) Volume: 49 ISSN: 1095-9130 ISO Abbreviation: Methods Publication Date: 2009 Sep |
Date Detail:
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Created Date: 2009-08-26 Completed Date: 2009-11-10 Revised Date: 2010-09-07 |
Medline Journal Info:
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Nlm Unique ID: 9426302 Medline TA: Methods Country: United States |
Other Details:
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Languages: eng Pagination: 63-9 Citation Subset: IM |
Affiliation:
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Department of Genetics, Southwest Foundation for Biomedical Research, San Antonio, TX 78227, USA. lcox@sfbrgenetics.org |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Animals Computational Biology / methods* Gene Expression Profiling / methods Genetic Techniques* Genetic Variation Humans Oligonucleotide Array Sequence Analysis / methods Papio Polymorphism, Genetic Primates / genetics* Quantitative Trait Loci / genetics* |
| Grant Support | |
ID/Acronym/Agency:
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C06 RR012087-01/RR/NCRR NIH HHS; C06 RR013556/RR/NCRR NIH HHS; C06 RR013556-01/RR/NCRR NIH HHS; C06 RR014578-01/RR/NCRR NIH HHS; C06 RR015456-01A1/RR/NCRR NIH HHS; P01 HL028972/HL/NHLBI NIH HHS; P01 HL028972-250010/HL/NHLBI NIH HHS; P01 HL028972-27/HL/NHLBI NIH HHS; P51 RR013986/RR/NCRR NIH HHS; P51 RR013986-020044/RR/NCRR NIH HHS; P51 RR013986-057133/RR/NCRR NIH HHS; R06 RR015456/RR/NCRR NIH HHS |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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