Limits...
Comparison of strategies for identification of regulatory quantitative trait loci of transcript expression traits.

Franceschini N, Wojczynski MK, Göring HH, Peralta JM, Dyer TD, Li X, Li H, North KE - BMC Proc (2007)

Bottom Line: Seventy-six percent of transcripts had a significant heritability and 54% of them had LOD score >or= 1.8.Bivariate genetic analysis of 15 transcripts that had co-localized QTLs on 4q28.2-q31.1 identified significant genetic correlation among some transcripts although no improvement in the magnitude of LOD scores in this region was noted.Similar results were found in analysis of 12 transcripts, that had co-localized QTLs in the 13q34 region.

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Affiliation: Department of Epidemiology, University of North Carolina Chapel Hill, Bank of America Center, 137 East Franklin Street, Suite 306, CB #8050, Chapel Hill, North Carolina 27514, USA. noraf@unc.edu

ABSTRACT
In order to identify regulatory genes, we determined the heritability of gene transcripts, performed linkage analysis to identify quantitative trait loci (QTLs), and evaluated the evidence for shared genetic effects among transcripts with co-localized QTLs in non-diseased participants from 14 CEPH (Centre d'Etude du Polymorphisme Humain) Utah families. Seventy-six percent of transcripts had a significant heritability and 54% of them had LOD score >or= 1.8. Bivariate genetic analysis of 15 transcripts that had co-localized QTLs on 4q28.2-q31.1 identified significant genetic correlation among some transcripts although no improvement in the magnitude of LOD scores in this region was noted. Similar results were found in analysis of 12 transcripts, that had co-localized QTLs in the 13q34 region. Principal-component analyses did not improve the ability to identify chromosomal regions of co-localized gene expressions.

No MeSH data available.


Chromosome 13 co-localized gene transcriptsunivariate and bivariate analyses results (n = 12 transcripts). See legend to Figure 1 for explanation of symbols.
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Figure 2: Chromosome 13 co-localized gene transcriptsunivariate and bivariate analyses results (n = 12 transcripts). See legend to Figure 1 for explanation of symbols.

Mentions: We performed analysis in an additional chromosome region of co-localized transcripts, 13q34 region, and noted similar results. Using univariate analysis, 12 transcripts co-localized in this region; and bivariate analysis revealed an intricate network of correlated traits (Table 2 and Figure 2). Using PCA, we obtained five factors, three of them with significant heritability. Similar to our previous findings on chomosome 4, PCA factors did not improve the magnitude of the LOD scores when compared to univariate analysis.


Comparison of strategies for identification of regulatory quantitative trait loci of transcript expression traits.

Franceschini N, Wojczynski MK, Göring HH, Peralta JM, Dyer TD, Li X, Li H, North KE - BMC Proc (2007)

Chromosome 13 co-localized gene transcriptsunivariate and bivariate analyses results (n = 12 transcripts). See legend to Figure 1 for explanation of symbols.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2367462&req=5

Figure 2: Chromosome 13 co-localized gene transcriptsunivariate and bivariate analyses results (n = 12 transcripts). See legend to Figure 1 for explanation of symbols.
Mentions: We performed analysis in an additional chromosome region of co-localized transcripts, 13q34 region, and noted similar results. Using univariate analysis, 12 transcripts co-localized in this region; and bivariate analysis revealed an intricate network of correlated traits (Table 2 and Figure 2). Using PCA, we obtained five factors, three of them with significant heritability. Similar to our previous findings on chomosome 4, PCA factors did not improve the magnitude of the LOD scores when compared to univariate analysis.

Bottom Line: Seventy-six percent of transcripts had a significant heritability and 54% of them had LOD score >or= 1.8.Bivariate genetic analysis of 15 transcripts that had co-localized QTLs on 4q28.2-q31.1 identified significant genetic correlation among some transcripts although no improvement in the magnitude of LOD scores in this region was noted.Similar results were found in analysis of 12 transcripts, that had co-localized QTLs in the 13q34 region.

View Article: PubMed Central - HTML - PubMed

Affiliation: Department of Epidemiology, University of North Carolina Chapel Hill, Bank of America Center, 137 East Franklin Street, Suite 306, CB #8050, Chapel Hill, North Carolina 27514, USA. noraf@unc.edu

ABSTRACT
In order to identify regulatory genes, we determined the heritability of gene transcripts, performed linkage analysis to identify quantitative trait loci (QTLs), and evaluated the evidence for shared genetic effects among transcripts with co-localized QTLs in non-diseased participants from 14 CEPH (Centre d'Etude du Polymorphisme Humain) Utah families. Seventy-six percent of transcripts had a significant heritability and 54% of them had LOD score >or= 1.8. Bivariate genetic analysis of 15 transcripts that had co-localized QTLs on 4q28.2-q31.1 identified significant genetic correlation among some transcripts although no improvement in the magnitude of LOD scores in this region was noted. Similar results were found in analysis of 12 transcripts, that had co-localized QTLs in the 13q34 region. Principal-component analyses did not improve the ability to identify chromosomal regions of co-localized gene expressions.

No MeSH data available.