Qiuying Sha

Summary

Affiliation: Michigan Technological University
Country: USA

Publications

  1. pmc Genome-wide association reveals three SNPs associated with sporadic amyotrophic lateral sclerosis through a two-locus analysis
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI, USA
    BMC Med Genet 10:86. 2009
  2. pmc Detecting susceptibility genes for rheumatoid arthritis based on a novel sliding-window approach
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Drive, Houghton, MI 49931, USA
    BMC Proc 3:S14. 2009
  3. ncbi request reprint A new association test using haplotype similarity
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 31:577-93. 2007
  4. pmc A new association test to test multiple-marker association
    Xuexia Wang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 33:164-71. 2009
  5. pmc A multi-marker test based on family data in genome-wide association study
    Zhaogong Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    BMC Genet 8:65. 2007
  6. ncbi request reprint Haplotype sharing transmission/disequilibrium tests that allow for genotyping errors
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton 49931, USA
    Genet Epidemiol 28:341-51. 2005
  7. doi request reprint An improved score test for genetic association studies
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan, USA
    Genet Epidemiol 35:350-9. 2011
  8. ncbi request reprint Tests of association between quantitative traits and haplotypes in a reduced-dimensional space
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Avenue, Houghton, MI 49931, USA
    Ann Hum Genet 69:715-32. 2005
  9. pmc Transmission/disequilibrium test based on haplotype sharing for tightly linked markers
    Shuanglin Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Am J Hum Genet 73:566-79. 2003
  10. doi request reprint Two adaptive weighting methods to test for rare variant associations in family-based designs
    Shurong Fang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 36:499-507. 2012

Detail Information

Publications31

  1. pmc Genome-wide association reveals three SNPs associated with sporadic amyotrophic lateral sclerosis through a two-locus analysis
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI, USA
    BMC Med Genet 10:86. 2009
    ..About 95% of ALS patients are in "sporadic form"-meaning their disease is not associated with a family history of the disease. To date, the genetic factors of the sporadic form of ALS are poorly understood...
  2. pmc Detecting susceptibility genes for rheumatoid arthritis based on a novel sliding-window approach
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Drive, Houghton, MI 49931, USA
    BMC Proc 3:S14. 2009
    ..Our method successfully identified several susceptibility genes that have been reported by other researchers and additional candidate genes for follow-up studies...
  3. ncbi request reprint A new association test using haplotype similarity
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 31:577-93. 2007
    ..The results of real data analysis are consistent with that of our simulation studies...
  4. pmc A new association test to test multiple-marker association
    Xuexia Wang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 33:164-71. 2009
    ..If there are interaction effects and weak or no marginal effects, the proposed method is more powerful than the Hotelling's T(2) test and slightly more powerful than the LDC tests...
  5. pmc A multi-marker test based on family data in genome-wide association study
    Zhaogong Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    BMC Genet 8:65. 2007
    ..If the parental phenotypes are available, we also propose a two-stage test in which a genomic screening test is used to select SNPs, and then the MPDT is used to test the association of the selected SNPs...
  6. ncbi request reprint Haplotype sharing transmission/disequilibrium tests that allow for genotyping errors
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton 49931, USA
    Genet Epidemiol 28:341-51. 2005
    ..Therefore, we conclude that a simple strategy may make the HS-TDT robust to genotyping errors. Our simulation results also show that this strategy may also be applicable to other haplotype-based TDTs...
  7. doi request reprint An improved score test for genetic association studies
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan, USA
    Genet Epidemiol 35:350-9. 2011
    ..We evaluate the performance of the improved score test by simulation studies and application to a real data set. Our results show that the power increases of the improved score test over the score test cannot be neglected in most cases...
  8. ncbi request reprint Tests of association between quantitative traits and haplotypes in a reduced-dimensional space
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Avenue, Houghton, MI 49931, USA
    Ann Hum Genet 69:715-32. 2005
    ..The simulation results show that the proposed tests have correct type I error rates and are more powerful than other tests in most cases considered in our simulation studies...
  9. pmc Transmission/disequilibrium test based on haplotype sharing for tightly linked markers
    Shuanglin Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Am J Hum Genet 73:566-79. 2003
    ..Our simulation results show that the HS-TDT has the correct type I error rate in structured populations and that, in most cases, the power of HS-TDT is higher than the power of the existing single-marker TDTs and haplotype-based TDTs...
  10. doi request reprint Two adaptive weighting methods to test for rare variant associations in family-based designs
    Shurong Fang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 36:499-507. 2012
    ....
  11. pmc Identification of interacting genes in genome-wide association studies using a model-based two-stage approach
    Zhaogong Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Ann Hum Genet 74:406-15. 2010
    ..Our proposed two-stage approach found that two SNPs have significant joint effect on sporadic ALS while the single-marker analysis and the two-stage analysis based on the full model did not find any significant results...
  12. pmc A data-driven weighting scheme for family-based genome-wide association studies
    Huaizhen Qin
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Eur J Hum Genet 18:596-603. 2010
    ..The simulation results showed that our proposed method is consistently more powerful than the top R method and the exponential weighting method, regardless of the LD structure, population structure, and family structure...
  13. pmc An ensemble learning approach jointly modeling main and interaction effects in genetic association studies
    Zhaogong Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 32:285-300. 2008
    ..01), while none of the single nucleotide polymorphisms showed significant marginal effects and none of the two-locus combinations showed significant two-locus interaction effects...
  14. ncbi request reprint A novel test for testing the optimally weighted combination of rare and common variants based on data of parents and affected children
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan, United States of America
    Genet Epidemiol 38:135-43. 2014
    ....
  15. pmc A variable-sized sliding-window approach for genetic association studies via principal component analysis
    Rui Tang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Ann Hum Genet 73:631-7. 2009
    ..Furthermore, since the proposed method is based on genotype data, it does not require any computationally intensive phasing program to account for uncertain haplotype phase...
  16. ncbi request reprint Two-stage association tests for genome-wide association studies based on family data with arbitrary family structure
    Tao Feng
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Eur J Hum Genet 15:1169-75. 2007
    ..Also, by carefully choosing the number of markers retained in the first stage, the power of a two-stage approach can be much more than that of the corresponding one-stage approach...
  17. doi request reprint Detecting association of rare and common variants by testing an optimally weighted combination of variants
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    Genet Epidemiol 36:561-71. 2012
    ....
  18. doi request reprint A test of Hardy-Weinberg equilibrium in structured populations
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan, USA
    Genet Epidemiol 35:671-8. 2011
    ..In homogenous populations, our proposed test has comparable power with the traditional χ(2) test...
  19. pmc Joint analysis for genome-wide association studies in family-based designs
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan, United States of America
    PLoS ONE 6:e21957. 2011
    ..By extensive simulation studies, we demonstrate that the joint analysis always results in increased power to detect genetic association and is robust to population stratification...
  20. pmc Detection of rare variant effects in association studies: extreme values, iterative regression, and a hybrid approach
    Zhaogong Zhang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    BMC Proc 5:S112. 2011
    ..Using the hybrid approach, the average power to detect causal genes for Q1 is about 40% and the powers to detect FLT1 and KDR are 100% and 68% for Q1, respectively. The powers to detect VNN3 and BCHE are 34% and 30% for Q2, respectively...
  21. pmc Genome-wide association tests by using block information in family data
    Rui Tang
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Drive, Houghton, MI 49931, USA
    BMC Proc 1:S149. 2007
    ..By using carefully chosen haplotype blocks, the power of association tests may be enhanced...
  22. ncbi request reprint Analytical correction for multiple testing in admixture mapping
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, 49931, USA
    Hum Hered 62:55-63. 2006
    ..Our simulation studies show that the proposed method gives correct overall type I error rates for genome scans in all cases, and is much more computationally efficient than simulation-based methods...
  23. ncbi request reprint A combinatorial searching method for detecting a set of interacting loci associated with complex traits
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, 49931, USA
    Ann Hum Genet 70:677-92. 2006
    ..033, and similarly a two-locus gene-gene interaction model best predicts DBP with an overall p-value = 0.045...
  24. pmc Joint analysis of two microarray gene-expression data sets to select lung adenocarcinoma marker genes
    Hongying Jiang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    BMC Bioinformatics 5:81. 2004
    ....
  25. pmc A method dealing with a large number of correlated traits in a linkage genome scan
    Tao Feng
    Department of Mathematical Sciences, Michigan Technological University, 2011B Woodmar Drive, Houghton, Michigan 49931, USA
    BMC Proc 1:S84. 2007
    ..Furthermore, considering one cluster of traits at a time may yield more linkage signals than considering traits individually...
  26. pmc Genome-wide association tests by two-stage approaches with unified analysis of families and unrelated individuals
    Xuexia Wang
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Drive, Houghton, Michigan 49931, USA
    BMC Proc 1:S140. 2007
    ..Our simulation studies and application to the dense SNP data of chromosome 6 in the GAW15 Problem 3 show that the two-stage methods are more powerful than the one-stage method (using the family-based association test only)...
  27. pmc A combinatorial approach for detecting gene-gene interaction using multiple traits of Genetic Analysis Workshop 16 rheumatoid arthritis data
    Xiaoqi Cui
    Department of Mathematical Sciences, Michigan Technological University, 1400 Townsend Drive, Houghton, Michigan 49931, USA
    BMC Proc 3:S43. 2009
    ..By analyzing three panels of markers, we have identified a significant gene-gene interaction between PTPN22 and TRAF1-C5...
  28. doi request reprint A novel method to detect gene-gene interactions in structured populations: MDR-SP
    Adan Niu
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI 49931, USA
    Ann Hum Genet 75:742-54. 2011
    ..MDR-SP is applicable to both quantitative and qualitative traits and can incorporate covariates. We present simulation studies to demonstrate the validity of the test and to evaluate its power...
  29. pmc Adaptive clustering and adaptive weighting methods to detect disease associated rare variants
    Qiuying Sha
    Department of Mathematical Sciences, Michigan Technological University, Houghton, MI, USA
    Eur J Hum Genet 21:332-7. 2013
    ..We recommend AW method because AW method is computationally more efficient than AC method...
  30. pmc Incorporating multiple-marker information to detect risk loci for rheumatoid arthritis
    Xuexia Wang
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    BMC Proc 3:S28. 2009
    ..Our results supported the findings of some rheumatoid arthritis susceptibility genes identified in the literature. In addition, we identified several new single-nucleotide polymorphism windows for follow-up studies...
  31. pmc Application of seventeen two-locus models in genome-wide association studies by two-stage strategy
    Adan Niu
    Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA
    BMC Proc 3:S26. 2009
    ..045 after adjusting for multiple tests and multiple models)...