ArticleGenetics2009
A model selection approach for the identification of quantitative trait loci in experimental crosses, allowing epistasis.
Article in Genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 155 papers.
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Who cites it
155 citing papers in PubMed.
- OsCPN10a, cooperating with OsCPN20 and OsHSP60-3B negatively regulate ABA signaling and enhance seed storability in rice.Journal of integrative plant biology · 2026Article
- Major Quantitative Trait Loci Control Low-Temperature Germination in Lettuce.Life (Basel, Switzerland) · 2026Article
- Genetic architecture of cowpea domestication: QTL mapping and comparison shed new light on the dual domestication events.G3 (Bethesda, Md.) · 2026Article
- QTL mapping and candidate gene identification of the full flowering date trait in olive trees (Olea Europaea L.).BMC plant biology · 2025Article
- Sparse matrix factorization robust to sample sharing across GWASs reveals interpretable genetic components.American journal of human genetics · 2025Article
- Integrating Dense Genotyping with High-Throughput Phenotyping Empowers the Genetic Dissection of Berry Quality and Resilience Traits in Grapevine.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Identification of robust yield quantitative trait loci derived from cultivated emmer for durum wheat improvement.The plant genome · 2025Article
- Identification of powdery mildew resistance quantitative trait loci in melon and development of resistant near-isogenic lines through marker-assisted backcrossing.Botanical studies · 2024Article
- An ultra-dense linkage map identified quantitative trait loci corresponding to fruit quality- and size-related traits in red goji berry.Frontiers in plant science · 2024Article
- Wheat (Triticum aestivum) chromosome 6D harbours the broad spectrum common bunt resistance gene Bt11.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Genetics of evolved load resistance in the skeletons of unusually large mice from Gough Island.Genetics · 2023Article
- QTL mapping of resistance to Pseudoperonospora cubensis clade 2, mating type A1, in Cucumis melo and dual-clade marker development.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Identification of stable QTL controlling multiple yield components in a durum × cultivated emmer wheat population under field and greenhouse conditions.G3 (Bethesda, Md.) · 2023Article
- Leveraging orthology within maize and Arabidopsis QTL to identify genes affecting natural variation in gravitropism.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Identification of genetic loci in lettuce mediating quantitative resistance to fungal pathogens.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Genomic regions associated with chocolate spot (Molecular breeding : new strategies in plant improvement · 2022Article
- A complex genetic architecture underlies mandibular evolution in big mice from Gough Island.Genetics · 2022Article
- Genetic Bases of Complex Traits: From Quantitative Trait Loci to Prediction.Methods in molecular biology (Clifton, N.J.) · 2022Article
- The genetic basis of the root economics spectrum in a perennial grass.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Identification of anthracnose race 1 resistance loci in lentil by integrating linkage mapping and genome-wide association study.The plant genome · 2021Article
95 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
Abstract
The identification of quantitative trait loci (QTL) and their interactions is a crucial step toward the discovery of genes responsible for variation in experimental crosses. The problem is best viewed as one of model selection, and the most important aspect of the problem is the comparison of models of different sizes. We present a penalized likelihood approach, with penalties on QTL and pairwise interactions chosen to control false positive rates. This extends the work of Broman and Speed to allow for pairwise interactions among QTL. A conservative version of our penalized LOD score provides strict control over the rate of extraneous QTL and interactions; a more liberal criterion is more lenient on interactions but seeks to maintain control over the rate of inclusion of false loci. The key advance is that one needs only to specify a target false positive rate rather than a prior on the number of QTL and interactions. We illustrate the use of our model selection criteria as exploratory tools; simulation studies demonstrate reasonable power to detect QTL. Our liberal criterion is comparable in power to two Bayesian approaches.
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