Computational approaches and software tools for genetic linkage map estimation in plants

被引:63
作者
Cheema, Jitender [1 ]
Dicks, Jo [1 ]
机构
[1] John Innes Ctr Plant Sci Res, Dept Computat & Syst Biol, Norwich NR4 7UH, Norfolk, England
基金
英国生物技术与生命科学研究理事会;
关键词
Genetic mapping; marker grouping; marker ordering; GENOTYPING ERRORS; DISTANCE GEOMETRY; LINKED FACTORS; INBRED LINES; CONSTRUCTION; LOCI; SEGREGATION; COMPUTER; MARKERS; VALUES;
D O I
10.1093/bib/bbp045
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Genetic maps are an important component within the plant biologist's toolkit, underpinning crop plant improvement programs. The estimation of plant genetic maps is a conceptually simple yet computationally complex problem, growing ever more so with the development of inexpensive, high-throughput DNA markers. The challenge for bioinformaticians is to develop analytical methods and accompanying software tools that can cope with datasets of differing sizes, from tens to thousands of markers, that can incorporate the expert knowledge that plant biologists typically use when developing their maps, and that facilitate user-friendly approaches to achieving these goals. Here, we aim to give a flavour of computational approaches for genetic map estimation, discussing briefly many of the key concepts involved, and describing a selection of software tools that employ them. This review is intended both for plant geneticists as an introduction to software tools with which to estimate genetic maps, and for bioinformaticians as an introduction to the underlying computational approaches.
引用
收藏
页码:595 / 608
页数:14
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