Nengjun Yi

Summary

Publications

  1. pmc An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294 0022, USA
    Genetics 176:1865-77. 2007
  2. ncbi request reprint Epistatic interaction between two nonstructural loci on chromosomes 7 and 3 influences hepatic lipase activity in BSB mice
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, AL 35294, USA
    J Lipid Res 45:2063-70. 2004
  3. ncbi request reprint Principal component analysis of quantitative trait loci for immune response to adenovirus in mice
    Solomon K Musani
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, AL 35294 0007, USA
    Hereditas 143:189-97. 2006
  4. 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
  5. pmc Hierarchical generalized linear models for multiple groups of rare and common variants: jointly estimating group and individual-variant effects
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, Alabama, USA
    PLoS Genet 7:e1002382. 2011
  6. 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
  7. ncbi request reprint Bayesian analyses of multiple epistatic QTL models for body weight and body composition in mice
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, AL 35294, USA
    Genet Res 87:45-60. 2006
  8. pmc Bayesian model selection for genome-wide epistatic quantitative trait loci analysis
    Nengjun Yi
    Department of Biostatistics, University of Alabama, Birmingham 35294, USA
    Genetics 170:1333-44. 2005
  9. pmc Characterization of epistasis influencing complex spontaneous obesity in the BSB model
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294, USA
    Genetics 167:399-409. 2004
  10. pmc Hierarchical generalized linear models for multiple quantitative trait locus mapping
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294 0022, USA
    Genetics 181:1101-13. 2009

Detail Information

Publications32

  1. pmc An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294 0022, USA
    Genetics 176:1865-77. 2007
    ..Our method has been implemented in the freely available package R/qtlbim (http://www.qtlbim.org) to facilitate the general usage of the Bayesian methodology for genomewide interacting QTL analysis...
  2. ncbi request reprint Epistatic interaction between two nonstructural loci on chromosomes 7 and 3 influences hepatic lipase activity in BSB mice
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, AL 35294, USA
    J Lipid Res 45:2063-70. 2004
    ..SPRET/Pt alleles of the QTL on each chromosome promote hepatic lipase activity. The proportion of phenotypic variance explained by the epistatic effect is higher than that explained by the main effect of the QTL on chromosome 7...
  3. ncbi request reprint Principal component analysis of quantitative trait loci for immune response to adenovirus in mice
    Solomon K Musani
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, AL 35294 0007, USA
    Hereditas 143:189-97. 2006
    ..01 and 31.01 cM) and 15 (29.21, 36.01, and 56.31 cM). These results illustrate the use of principal component analysis in mapping QTLs using multiple correlated traits...
  4. 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...
  5. pmc Hierarchical generalized linear models for multiple groups of rare and common variants: jointly estimating group and individual-variant effects
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, Alabama, USA
    PLoS Genet 7:e1002382. 2011
    ..The performance of the proposed procedures is further assessed via simulation studies. The methods are implemented in a freely available R package BhGLM (http://www.ssg.uab.edu/bhglm/)...
  6. 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...
  7. ncbi request reprint Bayesian analyses of multiple epistatic QTL models for body weight and body composition in mice
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, AL 35294, USA
    Genet Res 87:45-60. 2006
    ..Several main and epistatic effects were shared by the body composition and body weight traits, suggesting that pleiotropy plays an important role in growth and obesity...
  8. pmc Bayesian model selection for genome-wide epistatic quantitative trait loci analysis
    Nengjun Yi
    Department of Biostatistics, University of Alabama, Birmingham 35294, USA
    Genetics 170:1333-44. 2005
    ..We illustrate the proposed method by detecting new epistatic QTL for obesity in a backcross of CAST/Ei mice onto M16i...
  9. pmc Characterization of epistasis influencing complex spontaneous obesity in the BSB model
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294, USA
    Genetics 167:399-409. 2004
    ..Chromosomes 6 and 12 have not only main effects but also strong epistatic effects on plasma total cholesterol. Our results emphasize the importance of modeling epistasis for discovery of obesity genes...
  10. pmc Hierarchical generalized linear models for multiple quantitative trait locus mapping
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294 0022, USA
    Genetics 181:1101-13. 2009
    ..Our method has been implemented in our freely available package R/qtlbim (www.qtlbim.org), providing a valuable addition to our previous Markov chain Monte Carlo (MCMC) approach...
  11. pmc Bayesian quantitative trait loci mapping for multiple traits
    Samprit Banerjee
    Departments of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, AL 35294, USA
    Genetics 179:2275-89. 2008
    ..Our methods have been implemented in the freely available package R/qtlbim (http://www.qtlbim.org), which greatly facilitates the general usage of the Bayesian methodology for unraveling the genetic architecture of complex traits...
  12. pmc Bayesian mapping of genomewide interacting quantitative trait loci for ordinal traits
    Nengjun Yi
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama, Birmingham, Alabama 35294 0022, USA
    Genetics 176:1855-64. 2007
    ....
  13. pmc Mapping interacting QTL for count phenotypes using hierarchical Poisson and binomial models: an application to reproductive traits in mice
    Jun Li
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Genet Res (Camb) 92:13-23. 2010
    ..The proposed statistical models and methods provide valuable tools for detecting multiple interacting QTLs for complex count phenotypes...
  14. 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...
  15. pmc Constitutively decreased TGFBR1 allelic expression is a common finding in colorectal cancer and is associated with three TGFBR1 SNPs
    Boris Pasche
    Division of Hematology Oncology, The University of Alabama at Birmingham and UAB Comprehensive Cancer Center, Birmingham, AL 35203, USA
    J Exp Clin Cancer Res 29:57. 2010
    ..This phenotype was first observed in mice, then in lymphoblastoid cell lines from patients with microsatellite stable colorectal tumors...
  16. ncbi request reprint Detection of gene x gene interactions in genome-wide association studies of human population data
    Solomon K Musani
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Hum Hered 63:67-84. 2007
    ..Instead, a combination of approaches with the aim of balancing their specific strengths may be the optimal approach to investigate gene x gene interactions in human data...
  17. 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...
  18. ncbi request reprint Quantitative trait locus (QTL) mapping in aging systems
    Hui Chen Hsu
    Department of Medicine, Division of Clinical Immunology and Rheumatology, University of Alabama at Birmingham, Birmingham, AL, USA
    Methods Mol Biol 371:321-48. 2007
    ....
  19. pmc A Bayesian hierarchical model for detecting haplotype-haplotype and haplotype-environment interactions in genetic association studies
    Jun Li
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, AL 35294 0022, USA
    Hum Hered 71:148-60. 2011
    ..Furthermore, methods for detecting the association between rare haplotypes and disease have not kept pace with their counterpart of common haplotypes...
  20. ncbi request reprint Mapping quantitative trait loci affecting variation in Drosophila triacylglycerol storage
    Maria De Luca
    Department of Environmental Health Sciences, University of Alabama, Birmingham, AL 35294, USA
    Obes Res 13:1596-605. 2005
    ..The objective of our study was to identify quantitative trait loci (QTLs) that contribute to variation in triacylglycerol (TAG) storage in two D. melanogaster laboratory strains...
  21. pmc Candidate gene association studies: successes and failures
    Boris Pasche
    Division of Hematology Oncology, Department of Medicine, University of Alabama at Birmingham and UAB Comprehensive Cancer Center, Birmingham, AL 35294 3300, USA
    Curr Opin Genet Dev 20:257-61. 2010
    ..Together with genome-wide association studies, candidate gene approaches are likely to fill a large gap in our knowledge of the genetic basis of cancer within the next decade...
  22. pmc A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci
    Nengjun Yi
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama, Birmingham, 35294 0022, USA
    Genetics 167:967-75. 2004
    ..Finally, we develop strategies to improve the performance of MCMC algorithms...
  23. pmc Bayesian analysis of rare variants in genetic association studies
    Nengjun Yi
    Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, Alabama 35294 0022, USA
    Genet Epidemiol 35:57-69. 2011
    ..We evaluate the proposed method and compare its performance to existing methods on extensive simulated data. The results show that the proposed method performs well under all situations and is more powerful than existing approaches...
  24. pmc Kernel-machine testing coupled with a rank-truncation method for genetic pathway analysis
    Qi Yan
    Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama, United States of America
    Genet Epidemiol 38:447-56. 2014
    ..We also apply our proposed methodology to data from a study of the association between bipolar disorder and candidate pathways from Wellcome Trust Case Control Consortium (WTCCC) to show its utility. ..
  25. ncbi request reprint Genetic analysis of the antibody response to AAV2 and factor IX
    Huang Ge Zhang
    Division of Clinical Immunology and Rheumatology, Department of Medicine, University of Alabama at Birmingham, 701 South 19th Street, LHRB 473, Birmingham, AL 35294, USA
    Mol Ther 11:866-74. 2005
    ..66) for anti-cF.IX. These results indicate that multiple genetic loci independently regulate the isotype-specific antibody response to the AAV2 capsid and the cF.IX transgene...
  26. pmc Association between IL-32 genotypes and outcome in infection-associated acute lung injury
    John J Arcaroli
    Department of Medicine, University of Alabama at Birmingham, 1530 3rd Avenue South, Birmingham, AL 35294 0012, USA
    Crit Care 15:R138. 2011
    ..Our purpose was to investigate variation within the IL-32 promoter and gene, and susceptibility to and outcomes from infection associated acute lung injury (ALI)...
  27. pmc Statistical quantification of methylation levels by next-generation sequencing
    Guodong Wu
    Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama, United States of America
    PLoS ONE 6:e21034. 2011
    ..Therefore, there is a need to investigate the statistical issues related to the quantification of methylation levels for these emerging technologies, with the goal of developing an accurate quantification method...
  28. pmc A comprehensive genetic approach for improving prediction of skin cancer risk in humans
    Ana I Vazquez
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama, Birmingham, AL 35294, USA
    Genetics 192:1493-502. 2012
    ..We discuss avenues for improving prediction accuracy and speculate on the possible use of WGP to prospectively identify individuals at high risk...
  29. pmc Statistical analysis of genetic interactions
    Nengjun Yi
    Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Genet Res (Camb) 92:443-59. 2010
    ..I conclude this review by highlighting some areas of future research...
  30. pmc Stochastic search variable selection for identifying multiple quantitative trait loci
    Nengjun Yi
    Department of Biostatistics, University of Alabama, Birmingham 35294 0022, USA
    Genetics 164:1129-38. 2003
    ..The results demonstrate that the proposed method works well under typical situations of most QTL studies in terms of number of markers and marker density...
  31. pmc Evaluation of pooled association tests for rare variant identification
    Wan Yu Lin
    Department of Biostatistics, University of Alabama at Birmingham, 1665 University Boulevard, Birmingham, AL 35294, USA
    BMC Proc 5:S118. 2011
    ....
  32. pmc Bayesian analysis of genetic interactions in case-control studies, with application to adiponectin genes and colorectal cancer risk
    Nengjun Yi
    Department of Biostatistics, University of Alabama at Birmingham, 35294, USA
    Ann Hum Genet 75:90-104. 2011
    ....