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Genome-wide detection of intervals of genetic heterogeneity associated with complex traits.

Llinares-López F, Grimm DG, Bodenham DA, Gieraths U, Sugiyama M, Rowan B, Borgwardt K - Bioinformatics (2015)

Bottom Line: Here, we present an approach that overcomes both problems: it allows one to automatically find all contiguous sequences of single nucleotide polymorphisms in the genome that are jointly associated with the phenotype.We demonstrate on Arabidopsis thaliana genome-wide association study data that our approach can discover regions that exhibit genetic heterogeneity and would be missed by single-locus mapping.Our novel approach can contribute to the genome-wide discovery of intervals that are involved in the genetic heterogeneity underlying complex phenotypes.

View Article: PubMed Central - PubMed

Affiliation: Machine Learning and Computational Biology Lab, Department of Biosystems Science and Engineering, ETH Zürich, Basel, Switzerland, The Institute of Scientific and Industrial Research, Osaka University, Osaka, Japan, JST, PRESTO, Japan and Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany.

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A figure comparing the power of FAIS-WY, FAIS, BRUTE and UFE as the value of pcase varies
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btv263-F3: A figure comparing the power of FAIS-WY, FAIS, BRUTE and UFE as the value of pcase varies

Mentions: Results are shown in Figure 3. This shows that FAIS-WY has more power than FAIS, which has significantly more power than BRUTE, which in turn has significantly more power than UFE for in the range . In the Supplementary Material, Supplementary Figs S5 and S6 show that the increase in power is similar for intervals of different lengths (except for UFE, which performs poorly for longer intervals).Fig. 3.


Genome-wide detection of intervals of genetic heterogeneity associated with complex traits.

Llinares-López F, Grimm DG, Bodenham DA, Gieraths U, Sugiyama M, Rowan B, Borgwardt K - Bioinformatics (2015)

A figure comparing the power of FAIS-WY, FAIS, BRUTE and UFE as the value of pcase varies
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4559912&req=5

btv263-F3: A figure comparing the power of FAIS-WY, FAIS, BRUTE and UFE as the value of pcase varies
Mentions: Results are shown in Figure 3. This shows that FAIS-WY has more power than FAIS, which has significantly more power than BRUTE, which in turn has significantly more power than UFE for in the range . In the Supplementary Material, Supplementary Figs S5 and S6 show that the increase in power is similar for intervals of different lengths (except for UFE, which performs poorly for longer intervals).Fig. 3.

Bottom Line: Here, we present an approach that overcomes both problems: it allows one to automatically find all contiguous sequences of single nucleotide polymorphisms in the genome that are jointly associated with the phenotype.We demonstrate on Arabidopsis thaliana genome-wide association study data that our approach can discover regions that exhibit genetic heterogeneity and would be missed by single-locus mapping.Our novel approach can contribute to the genome-wide discovery of intervals that are involved in the genetic heterogeneity underlying complex phenotypes.

View Article: PubMed Central - PubMed

Affiliation: Machine Learning and Computational Biology Lab, Department of Biosystems Science and Engineering, ETH Zürich, Basel, Switzerland, The Institute of Scientific and Industrial Research, Osaka University, Osaka, Japan, JST, PRESTO, Japan and Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany.

Show MeSH
Related in: MedlinePlus