Literature DB >> 21217121

R/mpMap: a computational platform for the genetic analysis of multiparent recombinant inbred lines.

B Emma Huang1, Andrew W George.   

Abstract

UNLABELLED: Multiparent crosses of recombinant inbred lines provide opportunity to map markers and quantitative trait loci (QTL) with much greater resolution than is possible in biparental crosses. Realizing the full potential of these crosses requires computational tools capable of handling the increased statistical complexity of the analyses. R/mpMap provides a flexible and extensible environment, which interfaces easily with other packages to satisfy this demand. Functions in the package encompass simulation, marker map construction, haplotype reconstruction and QTL mapping. We demonstrate the easy-to-use features of mpMap through a simulated data example. AVAILABILITY: www.cmis.csiro.au/mpMap.

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Year:  2011        PMID: 21217121     DOI: 10.1093/bioinformatics/btq719

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  49 in total

Review 1.  Multiparent intercross populations in analysis of quantitative traits.

Authors:  Sujay Rakshit; Arunita Rakshit; J V Patil
Journal:  J Genet       Date:  2012       Impact factor: 1.166

2.  A Random-Model Approach to QTL Mapping in Multiparent Advanced Generation Intercross (MAGIC) Populations.

Authors:  Julong Wei; Shizhong Xu
Journal:  Genetics       Date:  2015-12-29       Impact factor: 4.562

Review 3.  MAGIC populations in crops: current status and future prospects.

Authors:  B Emma Huang; Klara L Verbyla; Arunas P Verbyla; Chitra Raghavan; Vikas K Singh; Pooran Gaur; Hei Leung; Rajeev K Varshney; Colin R Cavanagh
Journal:  Theor Appl Genet       Date:  2015-04-09       Impact factor: 5.699

4.  Construction of Genetic Linkage Maps in Multiparental Populations.

Authors:  Chaozhi Zheng; Martin P Boer; Fred A van Eeuwijk
Journal:  Genetics       Date:  2019-06-10       Impact factor: 4.562

5.  Selecting subsets of genotyped experimental populations for phenotyping to maximize genetic diversity.

Authors:  B Emma Huang; David Clifford; Colin Cavanagh
Journal:  Theor Appl Genet       Date:  2012-10-05       Impact factor: 5.699

6.  Efficient imputation of missing markers in low-coverage genotyping-by-sequencing data from multiparental crosses.

Authors:  B Emma Huang; Chitra Raghavan; Ramil Mauleon; Karl W Broman; Hei Leung
Journal:  Genetics       Date:  2014-02-28       Impact factor: 4.562

7.  Computationally efficient map construction in the presence of segregation distortion.

Authors:  Rohan Shah; Colin R Cavanagh; B Emma Huang
Journal:  Theor Appl Genet       Date:  2014-09-27       Impact factor: 5.699

8.  Whole-genome QTL analysis for MAGIC.

Authors:  Arūnas P Verbyla; Andrew W George; Colin R Cavanagh; Klara L Verbyla
Journal:  Theor Appl Genet       Date:  2014-06-14       Impact factor: 5.699

9.  TEOSINTE BRANCHED1 Regulates Inflorescence Architecture and Development in Bread Wheat (Triticum aestivum).

Authors:  Laura E Dixon; Julian R Greenwood; Stefano Bencivenga; Peng Zhang; James Cockram; Gregory Mellers; Kerrie Ramm; Colin Cavanagh; Steve M Swain; Scott A Boden
Journal:  Plant Cell       Date:  2018-02-14       Impact factor: 11.277

10.  Bin-based genome-wide association analyses improve power and resolution in QTL mapping and identify favorable alleles from multiple parents in a four-way MAGIC rice population.

Authors:  Zhongmin Han; Gang Hu; Hua Liu; Famao Liang; Lin Yang; Hu Zhao; Qinghua Zhang; Zhixin Li; Qifa Zhang; Yongzhong Xing
Journal:  Theor Appl Genet       Date:  2019-09-23       Impact factor: 5.699

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