Research

Interests

  • Genomic selection, genome-wise association, and pharmacogenomics

  • Statistical design, preprocessing and analysis of microarray and next-gen sequencing experiments

  • Large-scale multiple testing

  • Bioinformatics

  • Hierarchical modeling and mixed models

  • Resampling methods

  • Biostatistics and epidemiology

  • Statistical Genetics

  • Toxicology and Environmental Health

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Funding
  • National Science Foundation (NSF) Mathematical Biology Program Sub-award, Distance-based variable selection for high-dimensional biological data  (PI: Dan Nettleton, Iowa State University), September 15, 2013 to September 14, 2016
Working papers
  • Qu L, Nettleton D, Dekkers JCM.  Relative Variable Importance Measure and Backward Variable Selection for the Multiresponse Permutation Procedure, with Applications to High Dimensional Genomic Data. (To be submitted)
  • Qu L, Nettleton D, Dekkers JCM.  A Note on Constructing Permutation Tests for Mixed-Effect ANOVA Models and the Effect of Pooling Test Statistics across Genes in Analyzing Microarray Data. (Under preparation)
 
Publications / accepted papers
  • Qu L.  Combining dependent F-tests for robust association of quantitative traits under genetic model uncertainty. Statistical Applications in Genetics & Molecular Biology, 2014, 13(2):123-139. [link]
  • Gu T, Zhu M-J, Schroyen M, Qu L, Nettleton D, Kuhar D, Lunney JK, Ross JW, Zhao S-H, Tuggle CK. Endometrial gene expression profiling in pregnant Meishan and Yorkshire pigs on day 12 of gestation.  BMC Genomics, 2014, 15:156. [link]
  • Qu L, Guennel T, Marshall SL.  Linear Score Tests for Variance Components in Linear Mixed Models and Applications to Genetic Association Studies. Biometrics, 2013, 69(4):883-892. [link] [software]
  • Sun X, Qu L, Fernando RL, Garrick DJ, Dekkers JCM. A Fast EM Algorithm for BayesA-like Prediction of Genomic Breeding Values. PLoS ONE, 2012, 7(11):e49157 [link]
  • Qu L, Nettleton D, Dekkers JCM. A Hierarchical Semiparametric Model for Incorporating Inter-gene Information for Analysis of Genomic Data.  Biometrics, 2012, 68(4):1168-1177 [link] [software
  • Qu L, Nettleton D, Dekkers JCM. Improved estimation of the noncentrality parameter distribution from a large number of t-statistics, with applications to false discovery rate estimation in microarray data analysis. Biometrics, 2012, 68(4):1178-1187 [link] [software]
  • Uthe JJ, Qu L, Couture O, Bearson SMD, O’Connor AM, McKean JD, Rodriguez Torres Y, Dekkers JC, Nettleton D, Tuggle CK. Use of bioinformatic SNP predictions and gene expression profiling data to find and analyze SNPs associated with Salmonella colonization in swine. Journal of Animal Breeding and Genetics, 2011, 128(5):354-365. [link]
  • Uthe JJ, Bearson SMD, Qu L, Dekkers JC, Nettleton D, Rodriguez-Torres Y, O’Connor AM, McKean JD, Tuggle CK. Integrating Comparative Expression Profiling Data with Association of SNPs to Salmonella Shedding for Improved Food Safety and Porcine Disease Resistance. Animal Genetics, 2011, 42(5):521-534. [link]
  • Qu L, Nettleton D, Dekkers JCM, Bacciu N. Variance model selection with application to joint analysis of multiple microarray datasets under false discovery rate control. Statistics and Its Interface, 2010, 3(4):477-491. [link] [Synopsis (pdf)]
  • Barb CR, Hausman GJ, Rekaya R, Lents CA, Lkhagvadorj S, Qu L, Cai W, Couture OP, Anderson LL, Dekkers JCM, Tuggle CK. Gene expression in hypothalamus, liver and adipose tissues and food intake response to melanocortin-4 receptor (MC4R) agonist in pigs expressing MC4R mutations. Physiol. Genomics, 2010, 41:254-268. [link]
  • Lkhagvadorj S, Qu L, Cai W, Couture OP, Barb CR, Hausman GJ, Nettleton D, Anderson LL, Dekkers JCM, Tuggle CK. Gene expression profiling of the short-term adaptive response to acute caloric restriction in liver and adipose tissues of pigs differing in feed efficiency. Am J Physiol Regul Integr Comp Physiol. 2010, 298(2):R494-R507. [link]
  • Lkhagvadorj S, Qu L, Cai W, Couture OP, Barb CR, Hausman GJ, Nettleton D, Anderson LL, Dekkers JCM, Tuggle CK. Microarray gene expression profiles of fasting induced changes in liver and adipose tissues of pigs expressing the melanocortin-4 receptor D298N variant. Physiol. Genomics. 2009, 38(1):98-111. [link]
  • Uthe JJ, Wang Y, Qu L, Nettleton D, Tuggle CK, Bearson SMD. Correlating Blood Immune Parameters and a CCT7 Genetic Variant with the Shedding of Salmonella enterica Serovar Typhimurium in Swine. Veterinary Microbiology. 2009 Mar;135(3-4):384-388. [link]
  • Wang Y, Couture OP, Qu L, Uthe JJ, Bearson SMD, Kuhar D, Lunney JK, Nettleton D, Dekkers JCM, Tuggle CK. Analysis of Porcine Transcriptional Response to Salmonella enterica Serovar Choleraesuis Suggests Novel Targets of NFκB are Activated in the Mesenteric Lymph Node. BMC Genomics. 2008, 9:437. [link]
  • Wang Y, Qu L, Uthe JJ, Bearson SM, Kuhar D, Lunney JK, Couture OP, Nettleton D, Dekkers JC, Tuggle CK. Global Transcriptional Response of Porcine Mesenteric Lymph Nodes to Salmonella enterica Serovar Typhimurium. Genomics. 2007 Jul;90(1):72-84. [link]
  • Liu S, Sun G, Wan C, Sun X, Wan Y, Qu L. [Influence of Vitamin C on Oxidative Stress Induced by Cigarette Smoke Solution in Rat Lymphocyte]. Chinese Journal of Public Health. 2004 Aug;20(8):938-940. [In Chinese] [link]
  • Sun XC, Sun GF, Wang L, Zhang Y, Liu S, Wang Y, Qu L, Lin G. [Effect of Sodium Arsenite on the Proliferation and Cell Cycle of Keratogenetic Cells]. Chinese Journal of Industrial Hygiene and Occupational Diseases. 2004 Jun;22(3):219-220. [In Chinese] [link]
  • Jin Y, Sun G, Li X, Li G, Lu C, Qu L. Study on the Toxic Effects Induced by Different Arsenicals in Primary Cultured Rat Astroglia. Toxicology and Applied Pharmacology. 2004 May;196(3):396-403. [link]
  • Liu S, Sun G, Wan C, Sun X, Wang Y, Qu L. [Effect of Cigarette Smoke Solution on Viability of Rat Lymphocytes and the Intervention of Antioxidants]. Journal of Hygiene Research. 2004 May;33(3):300-302. [In Chinese] [link]
  • Liu S, Sun G, Wan C, Sun X, Wang Y, Qu L. [Oxidative Stress Produced by Cigarette Smoke Solution in Rat Lymphocytes]. Journal of Health Toxicology. 2004 March;18(1):15-17. [In Chinese] [link]
  • Liu S, Sun G, Sun X, Wang Y, Qu L. [DNA Damage and Repair of Human Lymphocytes Treated with Cigarette Smoke Solution]. China Public Health. 2004 Jan;20(1):52-53. [In Chinese] [link]
  • Sun G, Qu L. [Molecular Mechanisms of Arsenic: Current Research Situation and Prospectives]. Chinese Journal of Endemiology. 2003;22(Spec.):13-16. [In Chinese] [link]
  • Li B, Sun G, Pi J, Jin Y, Li X, Gao S, Sun X, Qu L. [Effects of 1-Year Water Remediation on DNA Damage in Populations Exposed to Arsenic Contaminated Drinking Water]. Chinese Journal of Endemiology. 2003;22(Spec.):453-455. [In Chinese]