R/qtl: high-throughput multiple QTL mapping

被引：296

作者：

Arends, Danny ^{[2
]}

Prins, Pjotr ^{[2
,3
]}

Jansen, Ritsert C. ^{[2
]}

Broman, Karl W. ^{[1
]}

机构：

[1] Univ Wisconsin, Dept Biostat & Med Informat, Madison, WI 53706 USA

[2] Univ Groningen, Groningen Bioinformat Ctr, Groningen, Netherlands

[3] Wageningen Univ, Dept Nematol, Wageningen, Netherlands

来源：

BIOINFORMATICS | 2010年 / 26卷 / 23期

基金：

美国国家卫生研究院;

关键词：

QUANTITATIVE TRAIT LOCI; EXPERIMENTAL CROSSES;

D O I：

10.1093/bioinformatics/btq565

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

R/qtl is free and powerful software for mapping and exploring quantitative trait loci (QTL). R/qtl provides a fully comprehensive range of methods for a wide range of experimental cross types. We recently added multiple QTL mapping (MQM) to R/qtl. MQM adds higher statistical power to detect and disentangle the effects of multiple linked and unlinked QTL compared with many other methods. MQM for R/qtl adds many new features including improved handling of missing data, analysis of 10 000 s of molecular traits, permutation for determining significance thresholds for QTL and QTL hot spots, and visualizations for cis-trans and QTL interaction effects. MQM for R/qtl is the first free and open source implementation of MQM that is multi-platform, scalable and suitable for automated procedures and large genetical genomics datasets.

引用

页码：2990 / 2992

页数：3

共 18 条

[1] [Anonymous], R LANG ENV STAT COMP
[2] Bayesian quantitative trait loci mapping for multiple traits
Banerjee, Samprit
Yandell, Brian S.
Yi, Nengjun
[J]. GENETICS, 2008, 179 (04) : 2275 - 2289
[3] Broman KW, 2009, STAT BIOL HEALTH, P1, DOI 10.1007/978-0-387-92125-9_1
[4] R/qtl: QTL mapping in experimental crosses
Broman, KW
Wu, H
Sen, S
Churchill, GA
[J]. BIOINFORMATICS, 2003, 19 (07) : 889 - 890
[5] Evidence for Epigenetic Interactions for Loci on Mouse Chromosome 1 Regulating Open Field Activity
de Mooij-van Malsen, J. G.
van Lith, H. A.
Oppelaar, H.
Olivier, B.
Kas, M. J. H.
[J]. BEHAVIOR GENETICS, 2009, 39 (02) : 176 - 182
[6] MetaNetwork: a computational protocol for the genetic study of metabolic networks
Fu, Jingyuan
Swertz, Morris A.
Keurentjes, Joost J. B.
Jansen, Ritsert C.
[J]. NATURE PROTOCOLS, 2007, 2 (03) : 685 - 694
[7] A SIMPLE REGRESSION METHOD FOR MAPPING QUANTITATIVE TRAIT LOCI IN LINE CROSSES USING FLANKING MARKERS
HALEY, CS
KNOTT, SA
[J]. HEREDITY, 1992, 69 : 315 - 324
[8] Jansen R.C., 2007, Handbook of Statistical Genetics, V3rd, P589
[9] JANSEN RC, 1994, GENETICS, V138, P871
[10] JANSEN RC, 1994, GENETICS, V136, P1447

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