title: Self-Confirmation and Ascertainment of the Candidate Genomic Regions of Complex Trait Loci - A None-Experimental Solution.
abstract: Over the past half century, thousands of quantitative trait loci (QTL) have been identified by using animal models and plant populations. However, the none-reliability and imprecision of the genomic regions of these loci have remained the major hurdle for the identification of the causal genes for the correspondent traits. We used a none-experimental strategy of strain number reduction for testing accuracy and ascertainment of the candidate region for QTL. We tested the strategy in over 400 analyses with data from 47 studies. These studies include: 1) studies with recombinant inbred (RI) strains of mice. We first tested two previously mapped QTL with well-defined genomic regions; We then tested additional four studies with known QTL regions; and finally we examined the reliability of QTL in 38 sets of data which are produced from relatively large numbers of RI strains, derived from C57BL/6J (B6) X DBA/2J (D2), known as BXD RI mouse strains; 2) studies with RI strains of rats and plants; and 3) studies using F2 populations in mice, rats and plants. In these cases, our method identified the reliability of mapped QTL and localized the candidate genes into the defined genomic regions. Our data also suggests that LRS score produced by permutation tests does not necessarily confirm the reliability of the QTL. Number of strains are not the reliable indicators for the accuracy of QTL either. Our strategy determines the reliability and accuracy of the genomic region of a QTL without any additional experimental study such as congenic breeding.
authors.affiliation: Department of Orthopedic Surgery & BME, -Campbell-Clinic, University of Tennessee Health Science Center, Memphis, TN, 38163, United States of America.|Department of Basic Research, Inner Mongolia Medical University, Inner Mongolia, 010110, PR China.
authors.forename: Lishi
authors.initials: L
authors.lastname: Wang
authors.affiliation: Department of Orthopedic Surgery & BME, -Campbell-Clinic, University of Tennessee Health Science Center, Memphis, TN, 38163, United States of America.|Mudanjiang Medical College, Mudanjiang, Heilongjiang, 157001, PR China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Jiao
authors.affiliation: Department. of Neurology, Beijing Tiantan Hospital, Capital Medical University, Beijing, 100050, PR China.
authors.forename: Yongjun
authors.initials: Y
authors.lastname: Wang
authors.affiliation: National Center of Soybean Research, Institute of Hebei Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050011, PR China.
authors.forename: Mengchen
authors.initials: M
authors.lastname: Zhang
authors.affiliation: Department of Orthopedic Surgery & BME, -Campbell-Clinic, University of Tennessee Health Science Center, Memphis, TN, 38163, United States of America.|Research Service, Veterans Affairs Medical Center, 1030 Jefferson Avenue, Memphis, TN, 38104, United States of America.
authors.forename: Weikuan
authors.initials: W
authors.lastname: Gu
mesh_terms: D000818:Animals; D001947:Breeding; D003433:Crosses, Genetic; D005260:Female; D023281:Genomics / Q000379:methods; D008297:Male; D051379:Mice; D010944:Plants / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics*; D051381:Rats; D015203:Reproducibility of Results