William S Bush

Summary

Affiliation: Vanderbilt University
Country: USA

Publications

  1. pmc A knowledge-driven interaction analysis reveals potential neurodegenerative mechanism of multiple sclerosis susceptibility
    W S Bush
    Department of Molecular Physiology and Biophysics, Center for Human Genetics Research, Vanderbilt University, Nashville, TN 37232 0700, USA
    Genes Immun 12:335-40. 2011
  2. pmc Evidence for polygenic susceptibility to multiple sclerosis--the shape of things to come
    William S Bush
    Vanderbilt University, USA
    Am J Hum Genet 86:621-5. 2010
  3. pmc Alternative contingency table measures improve the power and detection of multifactor dimensionality reduction
    William S Bush
    Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, Tennessee, USA
    BMC Bioinformatics 9:238. 2008
  4. pmc Visualizing SNP statistics in the context of linkage disequilibrium using LD-Plus
    William S Bush
    Department of Molecular Physiology, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA
    Bioinformatics 26:578-9. 2010
  5. pmc Interrogating the complex role of chromosome 16p13.13 in multiple sclerosis susceptibility: independent genetic signals in the CIITA-CLEC16A-SOCS1 gene complex
    Rebecca L Zuvich
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN 37232 0700, USA
    Hum Mol Genet 20:3517-24. 2011
  6. pmc Genetic variation in the rhythmonome: ethnic variation and haplotype structure in candidate genes for arrhythmias
    William S Bush
    Center for Human Genetics Research and Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN, USA
    Pharmacogenomics 10:1043-53. 2009
  7. ncbi request reprint A balanced accuracy function for epistasis modeling in imbalanced datasets using multifactor dimensionality reduction
    Digna R Velez
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, Tennessee
    Genet Epidemiol 31:306-15. 2007
  8. doi request reprint Genome simulation approaches for synthesizing in silico datasets for human genomics
    Marylyn D Ritchie
    Center for Human Genetics Research, Vanderbilt University, Nashville, Tennessee, USA
    Adv Genet 72:1-24. 2010
  9. pmc Genetic analysis of biological pathway data through genomic randomization
    Brian L Yaspan
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN 37232, USA
    Hum Genet 129:563-71. 2011
  10. pmc A comparison of cataloged variation between International HapMap Consortium and 1000 Genomes Project data
    Carrie C Buchanan
    Center for Human Genetics Research, Vanderbilt University, Nashville, Tennessee, USA
    J Am Med Inform Assoc 19:289-94. 2012

Detail Information

Publications18

  1. pmc A knowledge-driven interaction analysis reveals potential neurodegenerative mechanism of multiple sclerosis susceptibility
    W S Bush
    Department of Molecular Physiology and Biophysics, Center for Human Genetics Research, Vanderbilt University, Nashville, TN 37232 0700, USA
    Genes Immun 12:335-40. 2011
    ..Further, the implicated genes cluster within inter-related biological mechanisms that suggest a neurodegenerative component to MS...
  2. pmc Evidence for polygenic susceptibility to multiple sclerosis--the shape of things to come
    William S Bush
    Vanderbilt University, USA
    Am J Hum Genet 86:621-5. 2010
    ....
  3. pmc Alternative contingency table measures improve the power and detection of multifactor dimensionality reduction
    William S Bush
    Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, Tennessee, USA
    BMC Bioinformatics 9:238. 2008
    ..We sought to improve the ability of MDR to detect gene-gene interactions by replacing classification error with a different measure to score model quality...
  4. pmc Visualizing SNP statistics in the context of linkage disequilibrium using LD-Plus
    William S Bush
    Department of Molecular Physiology, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA
    Bioinformatics 26:578-9. 2010
    ....
  5. pmc Interrogating the complex role of chromosome 16p13.13 in multiple sclerosis susceptibility: independent genetic signals in the CIITA-CLEC16A-SOCS1 gene complex
    Rebecca L Zuvich
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN 37232 0700, USA
    Hum Mol Genet 20:3517-24. 2011
    ..These data highlight the importance of taking a closer look at the expression and function of chromosome 16p13 in the pathogenesis of MS...
  6. pmc Genetic variation in the rhythmonome: ethnic variation and haplotype structure in candidate genes for arrhythmias
    William S Bush
    Center for Human Genetics Research and Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN, USA
    Pharmacogenomics 10:1043-53. 2009
    ..Here, we report an evaluation of the variation and haplotype structure in six key components of the rhythmonome...
  7. ncbi request reprint A balanced accuracy function for epistasis modeling in imbalanced datasets using multifactor dimensionality reduction
    Digna R Velez
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, Tennessee
    Genet Epidemiol 31:306-15. 2007
    ..These results suggest that balanced accuracy should be used instead of accuracy for the MDR analysis of epistasis in imbalanced datasets...
  8. doi request reprint Genome simulation approaches for synthesizing in silico datasets for human genomics
    Marylyn D Ritchie
    Center for Human Genetics Research, Vanderbilt University, Nashville, Tennessee, USA
    Adv Genet 72:1-24. 2010
    ..Many of the hallmark features of biological datasets can be synthesized in silico; still much research is needed to enhance our capabilities to create datasets that capture the natural complexity of biological datasets...
  9. pmc Genetic analysis of biological pathway data through genomic randomization
    Brian L Yaspan
    Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN 37232, USA
    Hum Genet 129:563-71. 2011
    ..Using the KEGG database as an example, we apply PARIS to the publicly available Autism Genetic Resource Exchange GWAS dataset, revealing pathways with a significant enrichment of positive association results...
  10. pmc A comparison of cataloged variation between International HapMap Consortium and 1000 Genomes Project data
    Carrie C Buchanan
    Center for Human Genetics Research, Vanderbilt University, Nashville, Tennessee, USA
    J Am Med Inform Assoc 19:289-94. 2012
    ..In 2008 the 1000 Genomes Project aimed to sequence 2500 individuals and identify rare variants and 99% of variants with a MAF of <1%...
  11. pmc A small number of candidate gene SNPs reveal continental ancestry in African Americans
    Nuri Kodaman
    Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN, USA
    Ann Hum Genet 77:56-66. 2013
    ..Our results demonstrate that a small number of SNPs randomly selected from candidate genes can be used to estimate admixture proportions in African Americans reliably...
  12. pmc Exploring epistasis in candidate genes for rheumatoid arthritis
    Marylyn D Ritchie
    Department of Molecular Physiology and Biophysics, Center for Human Genetics Research, Vanderbilt University Medical Center, 21st Avenue South and Garland Avenue, Nashville, Tennessee 37232, USA
    BMC Proc 1:S70. 2007
    ..This comparison should be extended in future studies with both simulated and real data...
  13. pmc Chapter 11: Genome-wide association studies
    William S Bush
    Department of Biomedical Informatics, Center for Human Genetics Research, Vanderbilt University Medical School, Nashville, Tennessee, United States of America
    PLoS Comput Biol 8:e1002822. 2012
    ..We also look forward to the future beyond GWAS...
  14. pmc Evaluating power and type 1 error in large pedigree analyses of binary traits
    Anna C Cummings
    Center for Human Genetics Research, Vanderbilt University, Nashville, Tennessee, United States of America
    PLoS ONE 8:e62615. 2013
    ....
  15. pmc LD-Spline: Mapping SNPs on genotyping platforms to genomic regions using patterns of linkage disequilibrium
    William S Bush
    Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN, USA
    BioData Min 2:7. 2009
    ..CONCLUSION: LD-Spline is an integrated database routine that quickly and effectively defines the genomic region marked by a SNP using linkage disequilibrium, with a SNP-centric block definition algorithm...
  16. doi request reprint Overview of linkage analysis in complex traits
    William S Bush
    Vanderbilt University Medical Center, Nashville, Tennessee, USA
    Curr Protoc Hum Genet . 2010
    ..Finally, we discuss the benefits and weaknesses of linkage analysis in contrast to genome-wide association studies...
  17. ncbi request reprint Parallel multifactor dimensionality reduction: a tool for the large-scale analysis of gene-gene interactions
    William S Bush
    Center for Human Genetics Research, Vanderbilt University, Nashville, TN, USA
    Bioinformatics 22:2173-4. 2006
    ..AVAILABILITY: Parallel MDR is freely available for non-commercial research institutions. For full details see http://chgr.mc.vanderbilt.edu/ritchielab/pMDR. An open-source version of MDR software is available at http://www.epistasis.org...
  18. ncbi request reprint Discussing gene-gene interaction: warning--translating equations to English may result in jabberwocky
    Christopher W Bartlett
    Center for Quantitative and Computational Biology and Department of Pediatrics, College of Medicine, The Ohio State University, Columbus, OH, USA
    Genet Epidemiol 31:S61-7. 2007
    ..The difficulty of using (primarily) affected sib pair data in a gene x gene interaction analysis is explored...