Selection of representative SNP sets for genome-wide association studies: a metaheuristic approach

DOI10.1007/S11590-011-0419-7MaRDI QIDQ1758065zbMATH OpenOpenAlexDBLPWikidataFDO

Authors Gürkan Üstünkar, Süreyya Özöğür-Akyüz, Gerhard-Wilhelm Weber

Publication date 7 November 2012

Published in Optimization Letters (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1007/s11590-011-0419-7

zbMATH Keywords

bioinformaticsfeature selectionOR in computational biologyrepresentative SNP selectionsimulated annealingSNP-complex disease association

Mathematics Subject Classification ID

Approximation methods and heuristics in mathematical programming (90C59) Genetics and epigenetics (92D10)

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• CLUSTAG & WCLUSTAG: Hierarchical Clustering Algorithms for Efficient Tag-SNP Selection
• SHARE: an adaptive algorithm to select the most informative set of SNPs for candidate genetic association
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• Generating SNP barcode to evaluate SNP-SNP interaction of disease by particle swarm opti\-mi\-zation
• An integer programming approach for the selection of tag SNPs using multi-allelic LD

Cites work

• Mathematical modelling of biosystems
• Optimization by simulated annealing
• Optimization in computational chemistry and molecular biology. Local and global approaches. Conference, Princeton Univ., Princeton, NJ, USA, May 7--9, 1999

Cited in

(3)

• Generating SNP barcode to evaluate SNP-SNP interaction of disease by particle swarm opti\-mi\-zation
• SHARE: an adaptive algorithm to select the most informative set of SNPs for candidate genetic association
• Identifying disease related sites based on reliefF and random forest

Describes a project that uses

Uses Software

• SNPinfo
• HapBlock

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