Open Access3FunMap: full-sib family functional mapping of dynamic traits
Author(s) -
Chunfa Tong,
Zhong Wang,
Bo Zhang,
Jisen Shi,
Rongling Wu
Publication year - 2011
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btr306
Subject(s) - quantitative trait locus , linkage (software) , family based qtl mapping , trait , genetic linkage , locus (genetics) , association mapping , permutation (music) , r package , computer science , biology , genetics , computational biology , gene mapping , genotype , single nucleotide polymorphism , programming language , gene , physics , acoustics , chromosome
Functional mapping that embeds the developmental mechanisms of complex traits shows great power to study the dynamic pattern of genetic effects triggered by individual quantitative trait loci (QTLs). A full-sib family, produced by crossing two heterozygous parents, is characteristic of uncertainties about cross-type at a locus and linkage phase between different loci. Integrating functional mapping into a full-sib family requires a model selection procedure capable of addressing these uncertainties. 3FunMap, written in VC++ 6.0, provides a flexible and extensible platform to perform full-sib functional mapping of dynamic traits. Functions in the package encompass linkage phase determination, marker map construction and the pattern identification of QTL segregation, dynamic tests of QTL effects, permutation tests and numerical simulation. We demonstrate the features of 3FunMap through real data analysis and computer simulation.
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