Hae Won Uh

Summary

Affiliation: Leiden University Medical Center
Country: The Netherlands

Publications

  1. pmc How to quantify information loss due to phase ambiguity in haplotype case-control studies
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Genet 6:S108. 2005
  2. pmc Does pathway analysis make it easier for common variants to tag rare ones?
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Einthovenweg 20, 2333 ZC Leiden, The Netherlands
    BMC Proc 5:S90. 2011
  3. pmc How to deal with the early GWAS data when imputing and combining different arrays is necessary
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    Eur J Hum Genet 20:572-6. 2012
  4. pmc A longitudinal study of allergy and intestinal helminth infections in semi urban and rural areas of Flores, Indonesia (ImmunoSPIN Study)
    Firdaus Hamid
    Department of Microbiology, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia
    BMC Infect Dis 11:83. 2011
  5. pmc Does treatment of intestinal helminth infections influence malaria? Background and methodology of a longitudinal study of clinical, parasitological and immunological parameters in Nangapanda, Flores, Indonesia (ImmunoSPIN Study)
    Aprilianto E Wiria
    Department of Parasitology, Faculty of Medicine, University of Indonesia, Jakarta, Indonesia
    BMC Infect Dis 10:77. 2010
  6. pmc Locally weighted transmission/disequilibrium test for genetic association analysis
    Li Hsu
    Modeling and Methods, Biostatistics Program, Fred Hutchinson Cancer Research Center, Seattle, WA 98195, USA
    BMC Genet 6:S60. 2005
  7. pmc Haplotype estimation from fuzzy genotypes using penalized likelihood
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    PLoS ONE 6:e24219. 2011
  8. pmc Testing for genetic association taking into account phenotypic information of relatives
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, PO Box 9600, Leiden 2300RC, The Netherlands
    BMC Proc 3:S123. 2009
  9. pmc Assessment of global phase uncertainty in case-control studies
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Genet 10:54. 2009
  10. pmc Evaluation of regression methods when immunological measurements are constrained by detection limits
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Immunol 9:59. 2008

Collaborators

Detail Information

Publications28

  1. pmc How to quantify information loss due to phase ambiguity in haplotype case-control studies
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Genet 6:S108. 2005
    ..We determined which individuals were responsible for the information loss, and calculated how much information could be gained when the ambiguous individuals could be resolved by adding additional parental information...
  2. pmc Does pathway analysis make it easier for common variants to tag rare ones?
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Einthovenweg 20, 2333 ZC Leiden, The Netherlands
    BMC Proc 5:S90. 2011
    ..Our conclusion is that straightforward application of pathway analysis is not satisfactory; hence, when common and rare variants are jointly analyzed, larger weights should be assigned to rare variants...
  3. pmc How to deal with the early GWAS data when imputing and combining different arrays is necessary
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    Eur J Hum Genet 20:572-6. 2012
    ..To avoid false positive results, we recommend that more stringent QCs should be applied. We also advocate reporting the imputation quality measure (R(T)(2)) for the post-imputation QCs in publications...
  4. pmc A longitudinal study of allergy and intestinal helminth infections in semi urban and rural areas of Flores, Indonesia (ImmunoSPIN Study)
    Firdaus Hamid
    Department of Microbiology, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia
    BMC Infect Dis 11:83. 2011
    ..The question of whether helminth infections play a role in allergic diseases can best be addressed by intervention studies. None of the studies so far have been based on a large scale placebo-controlled trial...
  5. pmc Does treatment of intestinal helminth infections influence malaria? Background and methodology of a longitudinal study of clinical, parasitological and immunological parameters in Nangapanda, Flores, Indonesia (ImmunoSPIN Study)
    Aprilianto E Wiria
    Department of Parasitology, Faculty of Medicine, University of Indonesia, Jakarta, Indonesia
    BMC Infect Dis 10:77. 2010
    ..Different cross-sectional studies using diverse methodologies have reported that helminth infections might either exacerbate or reduce the severity of malaria attacks. The same discrepancies have been reported for parasitemia...
  6. pmc Locally weighted transmission/disequilibrium test for genetic association analysis
    Li Hsu
    Modeling and Methods, Biostatistics Program, Fred Hutchinson Cancer Research Center, Seattle, WA 98195, USA
    BMC Genet 6:S60. 2005
    ..As an illustration, we applied the method to the simulated Aipotu data...
  7. pmc Haplotype estimation from fuzzy genotypes using penalized likelihood
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    PLoS ONE 6:e24219. 2011
    ..We describe the model and the estimation algorithm. We apply it to a data set of accurate human single nucleotide polymorphism (SNP) and to a data set of fuzzy tomato AFLP scores...
  8. pmc Testing for genetic association taking into account phenotypic information of relatives
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, PO Box 9600, Leiden 2300RC, The Netherlands
    BMC Proc 3:S123. 2009
    ..Additionally, for X-linked single-nucleotide polymorphisms we proposed a two-degrees-of-freedom test. Performance of these methods was tested using Framingham Heart Study 500 k array data...
  9. pmc Assessment of global phase uncertainty in case-control studies
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Genet 10:54. 2009
    ..All three methods are designed for single populations; they can be applied in cases only, controls only or the whole data. Therefore they are not necessarily optimal for haplotype testing in case-control studies...
  10. pmc Evaluation of regression methods when immunological measurements are constrained by detection limits
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Immunol 9:59. 2008
    ..The second aim is to compare these methods by simulation studies based on real data...
  11. pmc Model selection based on logistic regression in a highly correlated candidate gene region
    Hae Won Uh
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Proc 1:S114. 2007
    ..We also evaluate model selection in terms of average prediction error across nine replicates. We conclude that for the Genetic Analysis Workshop 15 (GAW15) data, the newly developed Bayesian selection method performs well...
  12. pmc Targeted biomarker discovery by high throughput glycosylation profiling of human plasma alpha1-antitrypsin and immunoglobulin A
    L Renee Ruhaak
    Center for Proteomics and Metabolomics, Leiden University Medical Center, Leiden, The Netherlands
    PLoS ONE 8:e73082. 2013
    ....
  13. ncbi Genetic variation of antigen processing machinery components and association with cervical carcinoma
    Akash M Mehta
    Department of Pathology, Leiden University Medical Center, Leiden, The Netherlands
    Genes Chromosomes Cancer 46:577-86. 2007
    ..Our data indicate that combined genetic variation in the TAP2, LMP7, and ERAP1 genes is associated with increased cervical carcinoma risk...
  14. doi Plasma protein N-glycan profiles are associated with calendar age, familial longevity and health
    L Renee Ruhaak
    Department of Parasitology, Biomolecular Mass Spectrometry Unit, Leiden University Medical Center, Leiden, The Netherlands
    J Proteome Res 10:1667-74. 2011
    ..In conclusion, we describe two glycan features, of which increased levels mark familial longevity and decreased levels of one of these features mark the presence of cardiovascular disease...
  15. pmc Classification for Longevity Potential: The Use of Novel Biomarkers
    Marian Beekman
    Molecular Epidemiology, Leiden University Medical Center, Leiden, Netherlands
    Front Public Health 4:233. 2016
    ..In the current paper, we aim to classify a group of older people into those with longevity potential or controls...
  16. pmc Genome-wide association study identifies a single major locus contributing to survival into old age; the APOE locus revisited
    Joris Deelen
    Section of Molecular Epidemiology, Leiden University Medical Center, 2300 RC Leiden, The Netherlands
    Aging Cell 10:686-98. 2011
    ..005). In conclusion, the major locus determining familial longevity up to high age as detected by GWAS was marked by rs2075650, which tags the deleterious effects of the ApoE ε4 allele. No other major longevity locus was found...
  17. pmc Lipidomics of familial longevity
    Vanessa Gonzalez-Covarrubias
    Netherlands Metabolomics Centre, Leiden, The Netherlands
    Aging Cell 12:426-34. 2013
    ..This sex-specific lipid signature marks familial longevity and may suggest a plasma lipidome with a better antioxidant capacity, lower lipid peroxidation and inflammatory precursors, and an efficient beta-oxidation function...
  18. pmc Gene set analysis of GWAS data for human longevity highlights the relevance of the insulin/IGF-1 signaling and telomere maintenance pathways
    Joris Deelen
    Section of Molecular Epidemiology, Leiden University Medical Center, Leiden, The Netherlands
    Age (Dordr) 35:235-49. 2013
    ..In conclusion, this study shows that genetic variation in genes involved in the IIS and TM pathways is associated with human longevity...
  19. doi A Genome-Wide Association Study Identifies the Skin Color Genes IRF4, MC1R, ASIP, and BNC2 Influencing Facial Pigmented Spots
    Leonie C Jacobs
    1 Department of Dermatology, Erasmus MC University Medical Center Rotterdam, Rotterdam, The Netherlands 2 Netherlands Genomics Initiative NGI sponsored Netherlands Consortium for Healthy Aging NCHA, Leiden, The Netherlands
    J Invest Dermatol 135:1735-42. 2015
    ..We conclude that genetic variations in IRF4, MC1R, RALY/ASIP, and BNC2 contribute to the acquired amount of facial pigmented spots during aging, through pathways independent of the basal melanin production. ..
  20. pmc Modeling the effect of an associated single-nucleotide polymorphism in linkage studies
    Jeanine J Houwing-Duistermaat
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
    BMC Genet 6:S46. 2005
    ..The question to be answered was whether one of the single-nucleotide polymorphisms partly explains these high LOD scores. We did not have the answers when we analyzed the data...
  21. doi Total plasma N-glycome changes during pregnancy
    L Renee Ruhaak
    Center for Proteomics and Metabolomics, Leiden University Medical Center, Leiden 2333 ZA, The Netherlands
    J Proteome Res 13:1657-68. 2014
    ..Overall, these results show altered glycosylation profiles both for total plasma glycoproteins and on individual proteins during pregnancy, which may contribute to immunosuppression and have other biological functions. ..
  22. pmc Pathway analysis for family data using nested random-effects models
    Jeanine J Houwing-Duistermaat
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, PO Box 9600, 2300 RC, Leiden, The Netherlands
    BMC Proc 5:S22. 2011
    ..For family data the new approach appears to perform well, especially for the quantitative outcome. We found a power of 39% for the binary outcome and a power of 89% for the quantitative trait Q1...
  23. pmc New score tests for age-at-onset linkage analysis in general pedigrees
    Andrea Callegaro
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands Medical Center, PO Box 9600, 2300RC Leiden, The Netherlands
    BMC Proc 3:S97. 2009
    ..We use a two-step procedure. In the first step, we estimate the population parameters under the null hypothesis of no linkage. In the second step, we apply the score tests, using the population parameters estimated in the first step...
  24. pmc Decreased levels of bisecting GlcNAc glycoforms of IgG are associated with human longevity
    L Renee Ruhaak
    Biomolecular Mass Spectrometry Unit, Department of Parasitology, Leiden University Medical Center, Leiden, The Netherlands
    PLoS ONE 5:e12566. 2010
    ..It has been shown previously that the N-glycosylation pattern of human immunoglobulin G (IgG) is age-dependent. Here we investigate whether N-linked glycans reflect early features of human longevity...
  25. pmc Gene coexpression network analysis for family studies based on a meta-analytic approach
    Renaud Tissier
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, PO Box 9600, 2300 RC Leiden, The Netherlands
    BMC Proc 10:119-123. 2016
    ..The naïve approaches did not provide any significant results, while our approach detected genes via indirect effects. It also detected more genes than the single-probe analysis...
  26. pmc Evaluation of O2PLS in Omics data integration
    Said El Bouhaddani
    Department of Medical Statistics and Bioinformatics, LUMC, Albinusdreef 2, Leiden, 2300, RC, The Netherlands
    BMC Bioinformatics 17:11. 2016
    ....
  27. pmc A new score statistic to test for association given linkage in affected sibling pair-control designs
    Jeanine J Houwing-Duistermaat
    Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Postzone S 5 P, PO Box 9600, 2300 RC, Leiden, The Netherlands
    BMC Proc 1:S39. 2007
    ..We conclude that for the GAW15 data the new method performs well and that methods that use the linkage information may be more efficient than standard comparisons of genotypes in cases and controls...
  28. doi Single nucleotide polymorphisms in antigen processing machinery component ERAP1 significantly associate with clinical outcome in cervical carcinoma
    Akash M Mehta
    Department of Pathology, Leiden University Medical Center, Leiden, The Netherlands
    Genes Chromosomes Cancer 48:410-8. 2009
    ..The location of the ERAP1-127 SNP in the peptidase M1 domain of the ERAP1 aminopeptidase suggests the possibility of direct functional consequences of variation at this locus...