S Xu

Summary

Affiliation: University of California
Country: USA

Publications

  1. ncbi request reprint QTL analysis in plants
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA, USA
    Methods Mol Biol 195:283-310. 2002
  2. pmc Genome-wide evaluation for quantitative trait loci under the variance component model
    Lide Han
    Department of Botany and Plant Science, University of California, Riverside, CA 92521, USA
    Genetica 138:1099-109. 2010
  3. pmc Mapping quantitative trait loci for complex binary diseases using line crosses
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521 0124, USA
    Genetics 143:1417-24. 1996
  4. doi request reprint Mapping QTL for multiple traits using Bayesian statistics
    Chenwu Xu
    Jiangsu Provincial Key Laboratory of Crop Genetics and Physiology, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, People s Republic of China
    Genet Res (Camb) 91:23-37. 2009
  5. pmc Derivation of the shrinkage estimates of quantitative trait locus effects
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 177:1255-8. 2007
  6. pmc Mixed model analysis of quantitative trait loci
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Proc Natl Acad Sci U S A 97:14542-7. 2000
  7. ncbi request reprint An empirical Bayes method for estimating epistatic effects of quantitative trait loci
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, Riverside, California 92521, USA
    Biometrics 63:513-21. 2007
  8. pmc Genomewide analysis of epistatic effects for quantitative traits in barley
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 175:1955-63. 2007
  9. ncbi request reprint A multivariate model for ordinal trait analysis
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 97:409-17. 2006
  10. pmc Estimating polygenic effects using markers of the entire genome
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 163:789-801. 2003

Collaborators

Detail Information

Publications66

  1. ncbi request reprint QTL analysis in plants
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA, USA
    Methods Mol Biol 195:283-310. 2002
  2. pmc Genome-wide evaluation for quantitative trait loci under the variance component model
    Lide Han
    Department of Botany and Plant Science, University of California, Riverside, CA 92521, USA
    Genetica 138:1099-109. 2010
    ..While the Bayesian method produced the optimal result, the ML method is computationally more efficient than the Bayesian method. Simulation experiments were conducted to demonstrate the efficacy of the new methods...
  3. pmc Mapping quantitative trait loci for complex binary diseases using line crosses
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521 0124, USA
    Genetics 143:1417-24. 1996
    ..Potential utilization of the QTL mapping procedure for resolving alternative genetic models (e.g., single- or two-trait-locus model) is discussed...
  4. doi request reprint Mapping QTL for multiple traits using Bayesian statistics
    Chenwu Xu
    Jiangsu Provincial Key Laboratory of Crop Genetics and Physiology, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, People s Republic of China
    Genet Res (Camb) 91:23-37. 2009
    ..We also apply the method to mapping QTLs responsible for multiple disease resistances to the blast fungus of rice. A computer program written in SAS/IML that implements the method is freely available, on request, to academic researchers...
  5. pmc Derivation of the shrinkage estimates of quantitative trait locus effects
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 177:1255-8. 2007
    ..An important lemma regarding the posterior mean of a normal likelihood combined with a normal prior is introduced. The lemma is then used to derive the Bayesian shrinkage estimates of the QTL effects...
  6. pmc Mixed model analysis of quantitative trait loci
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Proc Natl Acad Sci U S A 97:14542-7. 2000
    ..This unified QTL mapping algorithm treats the fixed and random model approaches as special cases of the general mixed model methodology. Utility and flexibility of the method are demonstrated by using a set of simulated data...
  7. ncbi request reprint An empirical Bayes method for estimating epistatic effects of quantitative trait loci
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, Riverside, California 92521, USA
    Biometrics 63:513-21. 2007
    ..However, E-BAYES appears to outperform all other methods in terms of minimizing the mean-squared error (MSE) with relatively short computing time. Application of the new method to real data was demonstrated using a barley dataset...
  8. pmc Genomewide analysis of epistatic effects for quantitative traits in barley
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 175:1955-63. 2007
    ..This invalidates the common practice of epistatic analysis in which epistatic effects are estimated only for pairs of loci of which both have main effects...
  9. ncbi request reprint A multivariate model for ordinal trait analysis
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 97:409-17. 2006
    ..The advantages of the EM algorithm over other methods are addressed. Application of the method to QTL mapping for ordinal traits is demonstrated using a simulated baclcross (BC) population...
  10. pmc Estimating polygenic effects using markers of the entire genome
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 163:789-801. 2003
    ..Similar results were found from simulated data sets of F(2) and backcross (BC) families...
  11. ncbi request reprint Mapping quantitative trait loci underlying triploid endosperm traits
    C Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 90:228-35. 2003
    ..With these methods, we are now ready to map endosperm traits, as we can for regular quantitative trait under diploid control...
  12. pmc Theoretical basis of the Beavis effect
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 165:2259-68. 2003
    ..The theoretical prediction agrees well with the observations reported in Beavis's original simulation study. Application of the theory to meta-analysis of QTL mapping is discussed...
  13. ncbi request reprint Maximum likelihood analysis of quantitative trait loci under selective genotyping
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Heredity (Edinb) 84:525-37. 2000
    ..If it is impossible to analyse the full data, e.g. sample sizes are too large, phenotypic values of ungenotyped individuals are missing or composite interval mapping is to be performed, the proposed method can be applied...
  14. ncbi request reprint Phylogenetic analysis under reticulate evolution
    S Xu
    Department of Botany and Plant Sciences, University of California at Riverside, 92521, USA
    Mol Biol Evol 17:897-907. 2000
    ..A least-squares method is developed for reconstructing a reticulate phylogeny using gene frequency data. The efficacy of the method under the pure drift model is verified via Monte Carlo simulations...
  15. pmc Computation of the full likelihood function for estimating variance at a quantitative trait locus
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genetics 144:1951-60. 1996
    ..Given the joint distribution of the unknown IBDs, a method to compute the full likelihood function is developed for families of arbitrary sizes...
  16. pmc Mapping quantitative trait loci using multiple families of line crosses
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genetics 148:517-24. 1998
    ..number of individuals per family) in which QTL mapping reaches its maximum power and minimum estimation error. Deviation from the optimal strategy reduces the efficiency of the method...
  17. ncbi request reprint Further investigation on the regression method of mapping quantitative trait loci
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Heredity (Edinb) 80:364-73. 1998
    ..Like the existing regression method, the weighted least squares method can be useful in QTL mapping in conjunction with the permutation tests and construction of confidence intervals by bootstrapping...
  18. ncbi request reprint An EM algorithm for mapping binary disease loci: application to fibrosarcoma in a four-way cross mouse family
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Genet Res 82:127-38. 2003
    ..All the QTLs detected primarily show dominance effects...
  19. ncbi request reprint Multipoint genetic mapping of quantitative trait loci using a variable number of sibs per family
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genet Res 71:73-83. 1998
    ..This is further reflected in simulations with variable family sizes, where variance in family size improves the statistical power of QTL detection relative to a constant size control...
  20. ncbi request reprint Mapping quantitative trait loci for binary traits using a heterogeneous residual variance model: an application to Marek's disease susceptibility in chickens
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genetica 104:171-8. 1998
    ..Using the heterogeneous residual variance model, we identified a QTL on chromosome IV that controls Marek's disease susceptibility in chickens. The QTL alone explains 7.2% of the total disease variation...
  21. doi request reprint An expectation-maximization algorithm for the Lasso estimation of quantitative trait locus effects
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 105:483-94. 2010
    ..In the context of quantitative trait loci (QTL) mapping, this new EM algorithm can estimate both genotypic values and QTL effects expressed as linear contrasts of the genotypic values...
  22. pmc Mapping quantitative trait loci using the MCMC procedure in SAS
    S Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 106:357-69. 2011
    ..One QTL was identified on the second chromosome. This QTL appears to control the switch of seed-producing ability of female plants but does not affect the number of seeds produced once the switch is turned on...
  23. ncbi request reprint Clustering expressed genes on the basis of their association with a quantitative phenotype
    Zhenyu Jia
    Department of Botany and Plant Sciences, University of California, Riverside, 92521, USA
    Genet Res 86:193-207. 2005
    ..The method was verified by analysing two simulated datasets, and further demonstrated using real data generated in a microarray experiment for the study of gene expression associated with Alzheimer's disease...
  24. pmc Bayesian mapping of quantitative trait loci under complicated mating designs
    N Yi
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 157:1759-71. 2001
    ..Finally, we are able to simultaneously infer the posterior distribution of the number, the additive and dominance variances, and the chromosomal locations of all identified QTL...
  25. ncbi request reprint Multipoint genetic mapping of quantitative trait loci with dominant markers in outbred populations
    D D Gessler
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genetica 105:281-91. 1999
    ..Yet despite this, other situations show a large standard deviation in the estimate of the QTL position, thus making QTL mapping with dominant markers in outbred populations a useful detection tool, albeit limited in its resolution...
  26. ncbi request reprint Sib mating designs for mapping quantitative trait loci
    C Xie
    Department of Botany and Plant Science, University of California, Riverside 92521, USA
    Genetica 104:9-19. 1998
    ..As a result, the estimated QTL parameters can be applied to a wide statistical inference space relating to the entire reference population...
  27. ncbi request reprint Linkage analysis of quantitative trait loci in multiple line crosses
    Nengjun Yi
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521 0124, USA
    Genetica 114:217-30. 2002
    ..Design I involves two inbred lines and their derived F1, F2, and BC populations. Design II is a half-diallel cross involving three inbred lines. The two designs appear different, but can be handled with the same robust computer program...
  28. ncbi request reprint A quantitative genetics model for viability selection
    L Luo
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 94:347-55. 2005
    ..The quantitative genetic model has been verified with a series of Monte Carlo simulation experiments...
  29. pmc Bayesian mapping of quantitative trait loci under the identity-by-descent-based variance component model
    N Yi
    Department of Botany and Plant Sciences, University of California, Riverside, California, 92521 0124, USA
    Genetics 156:411-22. 2000
    ..Utilities of the method are demonstrated using a simulated population consisting of multiple full-sib families...
  30. pmc Mapping quantitative trait loci using naturally occurring genetic variance among commercial inbred lines of maize (Zea mays L.)
    Yuan Ming Zhang
    Department of Botany and Plant Sciences, University of California, Riverside, 92521 0124, USA
    Genetics 169:2267-75. 2005
    ..The MAS procedure implemented via BLUP may be routinely used by breeders to select superior lines and line combinations for development of new cultivars...
  31. pmc Joint mapping of quantitative trait Loci for multiple binary characters
    Chenwu Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 169:1045-59. 2005
    ..Efficiency of the method is demonstrated using simulated data. We also apply the new method to a set of real data and detect several loci responsible for blast resistance in rice...
  32. pmc Generalized linear mixed models for mapping multiple quantitative trait loci
    X Che
    Department of Statistics, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 109:41-9. 2012
    ..The two methods of GLMM were applied to MQM for the female fertility trait of wheat. Multiple QTL were detected to control the variation of the number of seeded spikelets...
  33. ncbi request reprint A Monte Carlo algorithm for computing the IBD matrices using incomplete marker information
    Y Mao
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521 0124, USA
    Heredity (Edinb) 94:305-15. 2005
    ..With these locus-specific IBD matrices, we are ready to search for quantitative trait loci along the genome in complicated pedigrees...
  34. ncbi request reprint Mapping viability loci using molecular markers
    L Luo
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 90:459-67. 2003
    ..We conclude that mapping viability loci can be accomplished using similar statistical techniques used in quantitative trait locus mapping for quantitative traits...
  35. ncbi request reprint Mapping quantitative trait loci with epistatic effects
    Nengjun Yi
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521 0124, USA
    Genet Res 79:185-98. 2002
    ..This requires the reversible jump Markov chain Monte Carlo algorithm. The utility of the proposed method is demonstrated through analysis of simulation data...
  36. pmc Mapping quantitative trait loci in F2 incorporating phenotypes of F3 progeny
    Yuan Ming Zhang
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 166:1981-93. 2004
    ..Extension of the mixture model to multiple QTL analysis is developed using a Bayesian approach. The computer program performing the Bayesian analysis of the simulated data is available to users for real data analysis...
  37. pmc Bayesian shrinkage estimation of quantitative trait loci parameters
    Hui Wang
    Department of Botany and Plant Sciences, University of California, Riverside, 92521, USA
    Genetics 170:465-80. 2005
    ..The method was also used to map QTL responsible for wound healing in a family of a (MRL/MPJ x SJL/J) cross with 633 F(2) mice derived from two inbred lines...
  38. pmc Mapping quantitative trait loci for expression abundance
    Zhenyu Jia
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 176:611-23. 2007
    ..In the experiment, approximately 40,000 transcripts and 145 codominant markers are investigated for their associations. A program written in SAS/IML is available from the authors on request...
  39. ncbi request reprint QTL analysis in arbitrary pedigrees with incomplete marker information
    C Vogl
    Department of Botany and Plant Sciences, University of California, Riverside CA 92521 0124, USA
    Heredity (Edinb) 89:339-45. 2002
    ..Computer simulations suggest that the algorithm can indeed handle complex pedigrees and detect two QTL on a linkage group, but that the number of individuals in a single extended family is limited to about 50 to 100 individuals...
  40. pmc Using the expectation or the distribution of the identity by descent for mapping quantitative trait loci under the random model
    D D Gessler
    Department of Botany and Plant Sciences, University of California, Riverside 93531, USA
    Am J Hum Genet 59:1382-90. 1996
    ..We discuss this in light of the general ability of the random model to partition these components...
  41. doi request reprint A Fisher scoring algorithm for the weighted regression method of QTL mapping
    L Han
    Department of Botany and Plant Science, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 101:453-64. 2008
    ..To compare the Fisher scoring algorithm with the expectation maximization (EM)-based ML method, we also developed a slightly simplified method to compute the variance-covariance matrix of the estimated parameters under the EM algorithm...
  42. ncbi request reprint A penalized maximum likelihood method for estimating epistatic effects of QTL
    Y M Zhang
    Department of Botany and Plant Sciences, University of California, Riverside, CA, USA
    Heredity (Edinb) 95:96-104. 2005
    ..Simulation studies also show that results of the penalized likelihood method are comparable to the Bayesian shrinkage analysis, but the computational speed of the penalized method is orders of magnitude faster...
  43. ncbi request reprint An EM algorithm for mapping quantitative resistance loci
    C Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Heredity (Edinb) 94:119-28. 2005
    ..The method is verified in simulated data under various combinations of the parameters. An SAS program is available to implement the multicycle ECM algorithm. The program can be downloaded from our website at www.statgen.ucr.edu...
  44. ncbi request reprint On the evolution of recombination and meiosis
    D D Gessler
    Department of Botany and Plant Sciences, University of California, Riverside 92521, USA
    Genet Res 73:119-31. 1999
    ..The genetic mechanism lends itself naturally to a model for the evolution of meiosis, where modern-day gametes are seen as derivative of ancient unicellular organisms...
  45. ncbi request reprint Efficiency of multistage marker-assisted selection in the improvement of multiple quantitative traits
    C Xie
    Department of Botany and Plant Science, University of California, Riverside 92521 0124, USA
    Heredity (Edinb) 80:489-98. 1998
    ..0) and the heritability (h2) is greater than 0.3. The efficiency of MAS increases as r increases and h2 decreases. For MAS to be more effective, it is necessary to decrease further the cost associated with molecular marker assays...
  46. ncbi request reprint Mapping QTLs for traits measured as percentages
    Yongcai Mao
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521 0124, USA
    Genet Res 83:159-68. 2004
    ..We develop the QTL mapping procedure based on the maximum likelihood methodology implemented via the expectation-maximization algorithm. The efficacy of the new method is demonstrated using Monte Carlo simulation...
  47. pmc Meiosis and the evolution of recombination at low mutation rates
    D D Gessler
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 156:449-56. 2000
    ..Interestingly, the allele spreads without repairing even a single DNA mutation...
  48. pmc Multipoint mapping of viability and segregation distorting loci using molecular markers
    C Vogl
    Department of Biology, University of Oulu, FIN 90401 Oulu, Finland
    Genetics 155:1439-47. 2000
    ..Both methods are applied to a set of simulated data and real data from a cross of two Scots pine trees...
  49. pmc Quantitative trait locus mapping can benefit from segregation distortion
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Genetics 180:2201-8. 2008
    ..However, other situations are less benign. A method that can simultaneously map QTL and SDL is discussed, maximizing both use of mapping resources and use by agricultural and evolutionary biologists...
  50. pmc Generalized linear model for interval mapping of quantitative trait loci
    Shizhong Xu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Theor Appl Genet 121:47-63. 2010
    ..Both algorithms were coded in C++ and interfaced with SAS as a user-defined SAS procedure called PROC QTL...
  51. ncbi request reprint Supervised cluster analysis for microarray data based on multivariate Gaussian mixture
    Yi Qu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Bioinformatics 20:1905-13. 2004
    ..Application of the model-based algorithms to unsupervised clustering has been reported. Here, for the first time, we demonstrated the use of the model-based algorithm in supervised clustering of microarray data...
  52. doi request reprint A simple method for calculating the statistical power for detecting a QTL located in a marker interval
    Z Hu
    Department of Botany and Plant Sciences, University of California, Riverside, CA 98521, USA
    Heredity (Edinb) 101:48-52. 2008
    ....
  53. ncbi request reprint Correcting the bias in estimation of genetic variances contributed by individual QTL
    Lang Luo
    Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
    Genetica 119:107-13. 2003
    ..Therefore, we also develop a simple method to estimate the standard error of the estimated genetic effect, which is subsequently used to correct the bias in the variance estimate...
  54. ncbi request reprint Quantitative trait associated microarray gene expression data analysis
    Yi Qu
    Department of Botany and Plant Sciences, University of California, Riverside, USA
    Mol Biol Evol 23:1558-73. 2006
    ..We give detailed instructions and provide a working program that allows others to directly implement this method in their own analyses...
  55. ncbi request reprint Box-Cox transformation for QTL mapping
    Runqing Yang
    School of Agriculture and Biology, Shanghai Jiaotong University, Shanghai, 201101, PR China
    Genetica 128:133-43. 2006
    ....
  56. ncbi request reprint Mapping multiple quantitative trait Loci for ordinal traits
    Nengjun Yi
    Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama 35294 0022, USA
    Behav Genet 34:3-15. 2004
    ..To this end, we provide a unified approach to mapping multiple QTL for continuous, binary, and ordinal traits. Utility and flexibility of the method are demonstrated using simulated data...
  57. pmc Bayesian shrinkage analysis of quantitative trait Loci for dynamic traits
    Runqing Yang
    School of Agriculture and Biology, Shanghai Jiaotong University, Shanghai 201101, People s Republic of China
    Genetics 176:1169-85. 2007
    ..We propose several alternative methods to present the results of the Bayesian shrinkage analysis. In particular, we found that the Wald test-statistic profile can serve as a mechanism to test the significance of a putative QTL...
  58. pmc Joint tests for quantitative trait loci in experimental crosses
    T Mark Beasley
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, AL, USA
    Genet Sel Evol 36:601-19. 2004
    ..Joint tests were generally more powerful for one-tailed selection under both backcross and F2 intercross situations. However, joint tests cannot be recommended for one-tailed selective genotyping if segregation distortion is suspected...
  59. pmc Bayesian model choice and search strategies for mapping interacting quantitative trait Loci
    Nengjun Yi
    Department of Biostatistics, University of Alabama, Birmingham, Alabama 35294, USA
    Genetics 165:867-83. 2003
    ..Utility and flexibility of the method are demonstrated using both simulated data and a real data set. Sensitivity of posterior inference to prior specifications of the number and genetic effects of QTL is investigated...
  60. ncbi request reprint Identification of QTL for production traits in chickens
    Christiane Hansen
    USDA, ARS, Avian Disease and Oncology Laboratory, East Lansing, Michigan, USA
    Anim Biotechnol 16:67-79. 2005
    ..Two of these regions, one spanning the area of 263/287 cM on GAA01 and the other spanning the area of 23/28 cM on GAA02, were associated with multiple QTL...
  61. pmc Quantitative trait loci responsible for variation in sexually dimorphic traits in Drosophila melanogaster
    Artyom Kopp
    Howard Hughes Medical Institute and Laboratory of Molecular Biology, University of Wisconsin, Madison, Wisconsin 53706, USA
    Genetics 163:771-87. 2003
    ....
  62. ncbi request reprint Mapping quantitative trait loci for traits defined as ratios
    Runqing Yang
    School of Agriculture and Biology, Shanghai Jiaotong University, Shanghai 201101, PR China
    Genetica 132:323-9. 2008
    ..A real example of QTL mapping for relative growth rate in soybean demonstrates that the new method can detect more QTL than existing methods of QTL mapping for traits defined as ratios...
  63. pmc Mapping quantitative trait loci for longitudinal traits in line crosses
    Runqing Yang
    School of Agriculture and Biology, Shanghai Jiaotong University, People s Republic of China
    Genetics 173:2339-56. 2006
    ..The method is verified with simulated data and demonstrated with experimental data from a pseudobackcross family of Populus (poplar) trees...
  64. ncbi request reprint Chromosomal regions harboring genes for the work to femur failure in mice
    Xinmin Li
    Molecular Genetics Division, Musculoskeletal Disease Center, JL Pettis VA Medical Center, 11201 Benton Street 151, Loma Linda, CA 92357, USA
    Funct Integr Genomics 1:367-74. 2002
    ..If this is also true in humans, this finding will challenge the predictive value of BMD for the risk of fracture...
  65. ncbi request reprint Mouse chromosome 9 quantitative trait loci for soft tissue regeneration: congenic analysis and fine mapping
    Hongrun Yu
    Musculoskeletal Disease Center, Jerry L Pettis Memorial VA Medical Center, Loma Linda, California 92357, USA
    Wound Repair Regen 15:922-7. 2007
    ..Based on the 2-LOD intervals, the total QTL region was confined to a combined length of no more than 28.2 Mb. Application of a Bayesian shrinkage estimation indicated that a major locus was located in a region of just 1.3 Mb...
  66. pmc Bayesian LASSO for quantitative trait loci mapping
    Nengjun Yi
    Department of Biostatistics, University of Alabama, Birmingham, AL 35294 0022, USA
    Genetics 179:1045-55. 2008
    ..Markov chain Monte Carlo (MCMC) algorithms are developed to simulate the parameters from the posteriors. The methods are illustrated using well-known barley data...