Thomas J Hoffmann

Summary

Publications

  1. pmc Parsing the effects of individual SNPs in candidate genes with family data
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Mass 02115, USA
    Hum Hered 69:91-103. 2010
  2. pmc Next generation genome-wide association tool: design and coverage of a high-throughput European-optimized SNP array
    Thomas J Hoffmann
    Institute for Human Genetics, University of California, San Francisco 94143 0794, CA, USA
    Genomics 98:79-89. 2011
  3. pmc Combining disease models to test for gene-environment interaction in nuclear families
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA
    Biometrics 67:1260-70. 2011
  4. pmc Design and coverage of high throughput genotyping arrays optimized for individuals of East Asian, African American, and Latino race/ethnicity using imputation and a novel hybrid SNP selection algorithm
    Thomas J Hoffmann
    Institute for Human Genetics, University of California, San Francisco, CA 94143 0794, USA
    Genomics 98:422-30. 2011
  5. pmc Genotyping Informatics and Quality Control for 100,000 Subjects in the Genetic Epidemiology Research on Adult Health and Aging (GERA) Cohort
    Mark N Kvale
    Institute for Human Genetics, University of California, San Francisco, California 94143
    Genetics 200:1051-60. 2015
  6. pmc Common coding variants in the HLA-DQB1 region confer susceptibility to age-related macular degeneration
    Eric Jorgenson
    Kaiser Permanente Northern California Division of Research, Oakland, CA, USA
    Eur J Hum Genet 24:1049-55. 2016
  7. pmc Gene-environment interaction tests for dichotomous traits in trios and sibships
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA
    Genet Epidemiol 33:691-9. 2009
  8. pmc Characterizing Race/Ethnicity and Genetic Ancestry for 100,000 Subjects in the Genetic Epidemiology Research on Adult Health and Aging (GERA) Cohort
    Yambazi Banda
    Institute for Human Genetics, University of California, San Francisco, California 94143 0794
    Genetics 200:1285-95. 2015
  9. pmc The impact of improved microarray coverage and larger sample sizes on future genome-wide association studies
    Karla J Lindquist
    Department of Epidemiology and Biostatistics, University of California, San Francisco, CA 94158 9001, USA
    Genet Epidemiol 37:383-92. 2013
  10. pmc Estimating kinship in admixed populations
    Timothy Thornton
    Department of Biostatistics, University of Washington, Seattle, 98195, USA
    Am J Hum Genet 91:122-38. 2012

Collaborators

Detail Information

Publications14

  1. pmc Parsing the effects of individual SNPs in candidate genes with family data
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Mass 02115, USA
    Hum Hered 69:91-103. 2010
    ..Lastly, we utilize these tests to analyze a continuous lung function phenotype as a proxy for asthma in the Childhood Asthma Management Program. The methods are implemented in the free R package fbati...
  2. pmc Next generation genome-wide association tool: design and coverage of a high-throughput European-optimized SNP array
    Thomas J Hoffmann
    Institute for Human Genetics, University of California, San Francisco 94143 0794, CA, USA
    Genomics 98:79-89. 2011
    ..At steady state, we have produced 462 million genotypes per week for each Axiom system. The new array provides a valuable addition to the repertoire of tools for large scale genome-wide association studies...
  3. pmc Combining disease models to test for gene-environment interaction in nuclear families
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA
    Biometrics 67:1260-70. 2011
    ..We utilize this hybrid approach to analyze a chronic obstructive pulmonary disorder dataset to test for gene-environment interaction in the Serpine2 gene with smoking. The methods are freely available in the R package fbati...
  4. pmc Design and coverage of high throughput genotyping arrays optimized for individuals of East Asian, African American, and Latino race/ethnicity using imputation and a novel hybrid SNP selection algorithm
    Thomas J Hoffmann
    Institute for Human Genetics, University of California, San Francisco, CA 94143 0794, USA
    Genomics 98:422-30. 2011
    ..The arrays provide excellent genome-wide coverage and are valuable additions for large-scale GWA studies...
  5. pmc Genotyping Informatics and Quality Control for 100,000 Subjects in the Genetic Epidemiology Research on Adult Health and Aging (GERA) Cohort
    Mark N Kvale
    Institute for Human Genetics, University of California, San Francisco, California 94143
    Genetics 200:1051-60. 2015
    ....
  6. pmc Common coding variants in the HLA-DQB1 region confer susceptibility to age-related macular degeneration
    Eric Jorgenson
    Kaiser Permanente Northern California Division of Research, Oakland, CA, USA
    Eur J Hum Genet 24:1049-55. 2016
    ..28; P=1.30 × 10(-3), DQB1*02: OR=1.32; P=9.00 × 10(-4)). These findings support a role of HLA class II alleles in the risk of AMD. ..
  7. pmc Gene-environment interaction tests for dichotomous traits in trios and sibships
    Thomas J Hoffmann
    Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA
    Genet Epidemiol 33:691-9. 2009
    ..Lastly, we apply these three tests to a group of nuclear families ascertained according to affection with Bipolar Disorder...
  8. pmc Characterizing Race/Ethnicity and Genetic Ancestry for 100,000 Subjects in the Genetic Epidemiology Research on Adult Health and Aging (GERA) Cohort
    Yambazi Banda
    Institute for Human Genetics, University of California, San Francisco, California 94143 0794
    Genetics 200:1285-95. 2015
    ....
  9. pmc The impact of improved microarray coverage and larger sample sizes on future genome-wide association studies
    Karla J Lindquist
    Department of Epidemiology and Biostatistics, University of California, San Francisco, CA 94158 9001, USA
    Genet Epidemiol 37:383-92. 2013
    ..Furthermore, increasing sample size has a much larger impact than increasing coverage on the potential of future GWAS to detect additional SNP-disease associations and heritability...
  10. pmc Estimating kinship in admixed populations
    Timothy Thornton
    Department of Biostatistics, University of Washington, Seattle, 98195, USA
    Am J Hum Genet 91:122-38. 2012
    ..We also apply REAP to the African American and Hispanic samples from the Women's Health Initiative SNP Health Association Resource (WHI-SHARe) study, in which hundreds of pairs of cryptically related individuals have been identified...
  11. pmc Cluster analysis in severe emphysema subjects using phenotype and genotype data: an exploratory investigation
    Michael H Cho
    Channing Laboratory, Brigham and Women s Hospital, Boston, MA, USA
    Respir Res 11:30. 2010
    ..One reason may be heterogeneity in disease definition. Unsupervised learning approaches may assist in understanding disease heterogeneity...
  12. pmc Polygenic modeling of genome-wide association studies: an application to prostate and breast cancer
    John S Witte
    Institute for Human Genetics, Department of Epidemiology and Biostatistics, University of California, San Francisco, San Francisco, California, USA
    OMICS 15:393-8. 2011
    ..This supports the further development and application of polygenic models to genomic data...
  13. pmc A large multiethnic genome-wide association study of prostate cancer identifies novel risk variants and substantial ethnic differences
    Thomas J Hoffmann
    Department of Epidemiology and Biostatistics, University of California, San Francisco, San Francisco, California Institute for Human Genetics, University of California, San Francisco, San Francisco, California
    Cancer Discov 5:878-91. 2015
    ..6% of disease heritability. The entire GWAS array explained approximately 33.4% of heritability, with a 4.3-fold enrichment within DNaseI hypersensitivity sites (P = 0.004)...
  14. doi request reprint Evidence of reproductive stoppage in families with autism spectrum disorder: a large, population-based cohort study
    Thomas J Hoffmann
    Institute for Human Genetics, University of California, San Francisco2Department of Epidemiology and Biostatistics, University of California, San Francisco
    JAMA Psychiatry 71:943-51. 2014
    ..Few studies have examined the curtailment of reproduction (ie, stoppage) after the diagnosis of a child with autism spectrum disorder (ASD)...