MAGIC:Publications

Reviews

• Flint J, Valdar W, Shifman S, Mott R (2005) Strategies for mapping and cloning quantitative trait genes in rodents. Nat Rev Genet 6(4):271-86.

• Cavanagh C, Morell M, Mackay I, Powell W (2008) From mutations to MAGIC: resources for gene discovery, validation and delivery in crop plants. Curr Opin Plant Biol 11:215-221.

• Rakshit S, Rakshit A, Patil JV (2012) Multiparent intercross populations in analysis of quantitative traits. J Genet 91(1):111-7.

• Morrell PL, Buckler ES, Ross-Ibarra J (2012) Crop genomics: advances and applications. Nature Review Genetics 13:85-96.

Methodology

• Mott R, Talbot CJ, Turri MG, Collins AC, Flint J (2000) A new method for fine-mapping quantitative trait loci in outbred animal stocks. Proc Natl Acad Sci USA, 97(23):12649-12654.

• Mott R, Flint J (2002) Simultaneous Detection and Fine-mapping of Quantitative Trait Loci in Mice using Heterogenous Stocks. Genetics 160:1609-1618.

• Valdar W, Flint J, Mott R (2003) QTL fine-mapping using Recombinant-Inbred Heterogeneous Stocks and In-Vitro Heterogeneous Stocks. (Mapping Strategies) Mammalian Genome 14:830-838.

• Broman KW (2005) The genomes of recombinant inbred lines. Genetics 169:1133-1146.

• Valdar W, Flint J, Mott R (2006) Simulating the collaborative cross: power of quantitative trait loci detection and mapping resolution in large sets of recombinant inbred strains of mice. Genetics 172(3):1783-97.

• Teuscher F, Broman KW (2007) Haplotype probabilities for multiple-strain recombinant inbred lines. Genetics 175:1267-1274.

• Yu J, Holland JB, McMullen MD, Buckler ES (2008) Genetic design and statistical power of nested association mapping in maize. Genetics 178:539-551.

• Stich B (2009) Comparison of mating designs for establishing nested association mapping populations in maize and Arabidopsis thaliana. Genetics 183(4):1525-34.

• Li H, Bradbury P, Ersoz E, Buckler ES, Wang J (2011) Joint QTL Linkage Mapping for Multiple-Cross Mating Design Sharing One Common Parent. PLoS ONE 6(3): e17573.

• Huang BE, George AW (2011) R/mpMap: a computational platform for the genetic analysis of multi-parent recombinant inbred lines. Bioinformatics 27:727-729.

• Broman KW (2012) Genotype probabilities at intermediate generations in the construction of recombinant inbred lines. Genetics 190:403-412.

• Broman KW (2012) Haplotype probabilities in advanced intercross populations. G3 2:199-202.

• Klasen JR, Piepho H-P, Stich B (2012) QTL detection power of multi-parental RIL populations in Arabidopsis thaliana. Heredity 108:626–632.

Mouse

• The Complex Trait Consortium [113 authors] (2004) The Collaborative Cross, a community resource for the genetic analysis of complex traits. Nat Genet 36:1133-1137.

• Collaborative Cross Consortium [97 authors] (2012) The genome architecture of the Collaborative Cross mouse genetic reference population. Genetics 190:389-401.

• see Gary Churchill's website and the Genetics/G3 special issue for more.

Rat

• Baud A et al. [70 authors] (2013) Combined sequence-based and genetic mapping analysis of complex traits in outbred rats. Nature Genetics 45:767-775.

Arabidopsis

• Kover PX, Valdar W, Trakalo J, Scarcelli N, Ehrenreich IM, Purugganan MD, Durrant C, Mott R (2009) A Multiparent Advanced Generation Inter-Cross to Fine-Map Quantitative Traits in Arabidopsis thaliana. PLoS Genet 5:e1000551.

• Huang X, Paulo MJ, Boer M, Effgen S, Keizer P, Koornneef M, van Eeuwijk FA (2011) Analysis of natural allelic variation in Arabidopsis using a multiparent recombinant inbred line population. Proc Natl Acad Sci 108:4488–4493.

• Gan X et al. [23 authors] (2011) Multiple reference genomes and transcriptomes for Arabidopsis thaliana. Nature 477:419-423.

Drosophila

• Macdonald SJ, Long AD (2007) Joint estimates of quantitative trait locus effect and frequency using synthetic recombinant populations of Drosophila melanogaster. Genetics 176(2):1261–81.

• King EG, Macdonald SJ, Long AD (2012) Properties and power of the Drosophila Synthetic Population Resource for the routine dissection of complex traits. Genetics 191:935-949.

• King EG, Merkes CM, McNeil CL, Hoofer SR, Sen S, Broman KW, Long AD, Macdonald SJ (2012) Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource. Genome Res 22:1558-1566.

Maize

• Buckler ES et al. [36 authors] (2009) The genetic architecture of maize flowering time. Science 325:714-718.

• McMullen MD et al. [32 authors] (2009) Genetic properties of the maize nested association mapping population. Science 325:737-740.

• Huang Y-F et al. [12 authors] (2010) The genetic architecture of grain yield and related traits in Zea maize L. revealed by comparing intermated and conventional populations. Genetics 186:395–404.

• see Ed Buckler's website for more.

Wheat

• Huang BE, George AW, Forrest KL, Kilian A, Hayden MJ, Morell M, Cavanagh C (2012) A Multiparent Advanced Generation Inter-Cross population for genetic analysis in wheat. Plant Biotechnology Journal 10:826-839.

• Cavanagh CR et al. [31 authors] (2013) Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. PNAS 110:8057-8062.

Rice

• Bandillo N et al. [14 authors] (2013] Multi-parent advanced generation inter-cross (MAGIC) populations in rice: progress and potential for genetics research and breeding. Rice 6:11.