Kai Yu

Summary

Affiliation: Washington University School of Medicine
Country: USA

Publications

  1. pmc Population substructure and control selection in genome-wide association studies
    Kai Yu
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, Maryland, United States of America
    PLoS ONE 3:e2551. 2008
  2. ncbi request reprint Genetic association mapping under founder heterogeneity via weighted haplotype similarity analysis in candidate genes
    K Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, Missouri 63110, USA
    Genet Epidemiol 27:182-91. 2004
  3. ncbi request reprint Global transmission/disequilibrium tests based on haplotype sharing in multiple candidate genes
    Kai Yu
    Division of Statistical Genomics, Department of Genetics Washington University, School of Medicine, St Louis, Missouri 63110, USA
    Genet Epidemiol 29:323-35. 2005
  4. ncbi request reprint Using tree-based recursive partitioning methods to group haplotypes for increased power in association studies
    Kai Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, MO 63110, USA
    Ann Hum Genet 69:577-89. 2005
  5. ncbi request reprint A haplotype similarity based transmission/disequilibrium test under founder heterogeneity
    Kai Yu
    Division of Biostatistics, School of Medicine, Washington University, 660 S Euclid, Campus Box 8067, St Louis, MO 63110, USA
    Ann Hum Genet 69:455-67. 2005
  6. ncbi request reprint Classifying disease chromosomes arising from multiple founders, with application to fine-scale haplotype mapping
    K Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, Missouri 63110, USA
    Genet Epidemiol 27:173-81. 2004
  7. ncbi request reprint Measuring marker information content by the ambiguity of block boundaries observed in dense SNP data
    C Charles Gu
    Division of Biostatistics, Washington University School of Medicine, St Louis, MO 63110, USA
    Ann Hum Genet 71:127-40. 2007
  8. ncbi request reprint A parametric comparison of diagnostic accuracy with three ordinal diagnostic groups
    Chengjie Xiong
    Division of Biostatistics, Washington University in St Louis, St Louis, MO 63110, USA
    Biom J 49:682-93. 2007
  9. doi request reprint Characterization of LD structures and the utility of HapMap in genetic association studies
    C Charles Gu
    Division of Biostatistics and Department of Genetics, Washington University School of Medicine, St Louis, MO 63110, USA
    Adv Genet 60:407-35. 2008
  10. pmc Leptin is associated with blood pressure and hypertension in women from the National Heart, Lung, and Blood Institute Family Heart Study
    Duanduan Ma
    Division of Statistical Genomics, Washington University School of Medicine, St Louis, MO 63108, USA
    Hypertension 53:473-9. 2009

Detail Information

Publications44

  1. pmc Population substructure and control selection in genome-wide association studies
    Kai Yu
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, Maryland, United States of America
    PLoS ONE 3:e2551. 2008
    ..A study using suboptimal controls can have acceptable type I error when an effective strategy for the correction of PS is employed...
  2. ncbi request reprint Genetic association mapping under founder heterogeneity via weighted haplotype similarity analysis in candidate genes
    K Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, Missouri 63110, USA
    Genet Epidemiol 27:182-91. 2004
    ..The method can be applied to both haplotype and genotype data. Simulation studies suggest that our method has the correct type I error rate, and is generally more powerful than existing methods of haplotype similarity analysis...
  3. ncbi request reprint Global transmission/disequilibrium tests based on haplotype sharing in multiple candidate genes
    Kai Yu
    Division of Statistical Genomics, Department of Genetics Washington University, School of Medicine, St Louis, Missouri 63110, USA
    Genet Epidemiol 29:323-35. 2005
    ..Compared with the gene-by-gene test, the new global tests appear to be more powerful in situations where all candidate genes are associated with the disease...
  4. ncbi request reprint Using tree-based recursive partitioning methods to group haplotypes for increased power in association studies
    Kai Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, MO 63110, USA
    Ann Hum Genet 69:577-89. 2005
    ..Simulation studies suggest that the proposed method has the right type I error rate, and is more powerful than some existing haplotype-based tests...
  5. ncbi request reprint A haplotype similarity based transmission/disequilibrium test under founder heterogeneity
    Kai Yu
    Division of Biostatistics, School of Medicine, Washington University, 660 S Euclid, Campus Box 8067, St Louis, MO 63110, USA
    Ann Hum Genet 69:455-67. 2005
    ..Finally, we apply the proposed method to study the association of the leptin gene with obesity from the National Heart, Lung, and Blood Institute Family Heart Study...
  6. ncbi request reprint Classifying disease chromosomes arising from multiple founders, with application to fine-scale haplotype mapping
    K Yu
    Division of Biostatistics, School of Medicine, Washington University, St Louis, Missouri 63110, USA
    Genet Epidemiol 27:173-81. 2004
    ..We also show that the method allows more precise estimates of the disease mutation loci than obtained by other fine-scale mapping methods...
  7. ncbi request reprint Measuring marker information content by the ambiguity of block boundaries observed in dense SNP data
    C Charles Gu
    Division of Biostatistics, Washington University School of Medicine, St Louis, MO 63110, USA
    Ann Hum Genet 71:127-40. 2007
    ..This approach can quantify the information content of individual markers in the context of highly dense SNP data, which may have important implications in designing efficient genome-wide association mapping projects...
  8. ncbi request reprint A parametric comparison of diagnostic accuracy with three ordinal diagnostic groups
    Chengjie Xiong
    Division of Biostatistics, Washington University in St Louis, St Louis, MO 63110, USA
    Biom J 49:682-93. 2007
    ..Finally, we apply our proposed methodology to a real data set of 118 subjects to compare the diagnostic accuracy of early stage Alzheimer's disease (AD) from multiple neuropsychological tests...
  9. doi request reprint Characterization of LD structures and the utility of HapMap in genetic association studies
    C Charles Gu
    Division of Biostatistics and Department of Genetics, Washington University School of Medicine, St Louis, MO 63110, USA
    Adv Genet 60:407-35. 2008
    ....
  10. pmc Leptin is associated with blood pressure and hypertension in women from the National Heart, Lung, and Blood Institute Family Heart Study
    Duanduan Ma
    Division of Statistical Genomics, Washington University School of Medicine, St Louis, MO 63108, USA
    Hypertension 53:473-9. 2009
    ..It also provides insight into the gender differences in hypertension, as well as the differential distribution and activity of leptin in men and women...
  11. ncbi request reprint Endocardial and epicardial derived FGF signals regulate myocardial proliferation and differentiation in vivo
    Kory J Lavine
    Department of Molecular Biology and Pharmacology, Washington University Medical School, St Louis, MO 63110, USA
    Dev Cell 8:85-95. 2005
    ..FGFs thus constitute all or part of the epicardial signal regulating myocardial growth and differentiation...
  12. ncbi request reprint Signaling through FGF receptor-2 is required for lens cell survival and for withdrawal from the cell cycle during lens fiber cell differentiation
    Claudia M Garcia
    Department of Ophthalmology and Visual Sciences, Washington University, St Louis, Missouri 63110, USA
    Dev Dyn 233:516-27. 2005
    ..It also contributes to the normal elongation of primary lens fiber cells and to the survival of lens epithelial cells...
  13. ncbi request reprint Conditional inactivation of FGF receptor 2 reveals an essential role for FGF signaling in the regulation of osteoblast function and bone growth
    Kai Yu
    Department of Molecular Biology and Pharmacology, Washington University Medical School, Campus Box 8103, 660 S Euclid Avenue, St Louis, Missouri 63110, USA
    Development 130:3063-74. 2003
    ..Although differentiation of the osteoblast lineage was not disturbed, the proliferation of osteoprogenitors and the anabolic function of mature osteoblasts were severely affected...
  14. pmc Histomorphological study of palatal shelf elevation during murine secondary palate formation
    Kai Yu
    Department of Developmental Biology, Washington University School of Medicine, St Louis, Missouri, USA
    Dev Dyn 240:1737-44. 2011
    ..Our study provides a framework that recognizes variation in timing of palatal morphogenesis along the AP axis that will aid in the investigation of the mechanisms regulating palatal shelf elevation...
  15. pmc FGF9 regulates early hypertrophic chondrocyte differentiation and skeletal vascularization in the developing stylopod
    Irene H Hung
    Department of Molecular Biology and Pharmacology, Washington University School of Medicine, Campus Box 8103, 660 S Euclid Avenue, St Louis, MO 63110, USA
    Dev Biol 307:300-13. 2007
    ..In developing stylopod elements, FGF9 promotes chondrocyte hypertrophy at early stages and regulates vascularization of the growth plate and osteogenesis at later stages of skeletal development...
  16. pmc Analysis of a gain-of-function FGFR2 Crouzon mutation provides evidence of loss of function activity in the etiology of cleft palate
    Alison K Snyder-Warwick
    Division of Plastic Surgery, Departments of Developmental Biology and Pathology and Immunology, Washington University School of Medicine, St Louis, MO 63110, USA
    Proc Natl Acad Sci U S A 107:2515-20. 2010
    ..Knowledge of how mesenchymal FGF signaling regulates palatal shelf development may ultimately lead to pharmacological approaches to reduce cleft palate incidence in genetically predisposed humans...
  17. ncbi request reprint Power and sample size for clinical trials when efficacy is required in multiple endpoints: application to an Alzheimer's treatment trial
    Chengjie Xiong
    Division of Biostatistics, Washington University in St Louis, MO 63110, USA
    Clin Trials 2:387-93. 2005
    ..When the efficacy of a treatment in a randomized controlled trial is required for multiple primary endpoints, trial design and analysis differ from trial requiring efficacy in only one of the multiple endpoints...
  18. ncbi request reprint Sequential roles of Hedgehog and Wnt signaling in osteoblast development
    Hongliang Hu
    Department of Medicine, Washington University Medical School, St Louis, MO 63110, USA
    Development 132:49-60. 2005
    ..Finally Wnt7b is identified as a potential endogenous ligand regulating osteogenesis. These data support a model that integrates Hh and Wnt signaling in the regulation of osteoblast development...
  19. ncbi request reprint FGF signaling regulates mesenchymal differentiation and skeletal patterning along the limb bud proximodistal axis
    Kai Yu
    Department of Developmental Biology, Washington University School of Medicine, St Louis, MO 63110 USA
    Development 135:483-91. 2008
    ....
  20. ncbi request reprint Improved correction for population stratification in genome-wide association studies by identifying hidden population structures
    Qizhai Li
    Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland
    Genet Epidemiol 32:215-26. 2008
    ..We show through simulation studies that, compared with the EIGENSTRAT method, the new method requires a smaller number of markers and yields a more appropriate correction for population stratification...
  21. ncbi request reprint Polymorphic variants in PTGS2 and prostate cancer risk: results from two large nested case-control studies
    Kim N Danforth
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20852, USA
    Carcinogenesis 29:568-72. 2008
    ....
  22. doi request reprint Multiple loci identified in a genome-wide association study of prostate cancer
    Gilles Thomas
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA
    Nat Genet 40:310-5. 2008
    ..Our findings point to multiple loci with moderate effects associated with susceptibility to prostate cancer that, taken together, in the future may predict high risk in select individuals...
  23. doi request reprint Efficient approximation of P-value of the maximum of correlated tests, with applications to genome-wide association studies
    Qizhai Li
    Biostatistics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
    Ann Hum Genet 72:397-406. 2008
    ..We use simulation studies as well as real datasets on 17 confirmed disease-associated SNPs to assess the accuracy of the proposed method. We also apply the method to the GWAS of coronary artery disease...
  24. doi request reprint TNF polymorphisms and prostate cancer risk
    Kim N Danforth
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Bethesda, Maryland 20852, USA
    Prostate 68:400-7. 2008
    ..Inflammation has been hypothesized to increase prostate cancer risk. Tumor necrosis factor (TNF) is an important mediator of the inflammatory process, but the relationship between TNF variants and prostate cancer remains unclear...
  25. pmc Fibroblast growth factor receptor signaling is essential for lens fiber cell differentiation
    Haotian Zhao
    Graduate Program in Molecular, Cellular and Developmental Biology, College of Biological Sciences, The Ohio State University, Columbus, OH 43210, USA
    Dev Biol 318:276-88. 2008
    ..Therefore, while signaling by FGF receptors is essential for lens fiber differentiation, different FGF receptors function redundantly...
  26. ncbi request reprint MAX-rank: a simple and robust genome-wide scan for case-control association studies
    Qizhai Li
    Biostatistics Branch, National Cancer Institute, Bethesda, MD 20892, USA
    Hum Genet 123:617-23. 2008
    ..Thus, we recommend to use MAX-rank for genome-wide scans. After the top-ranked SNPs are identified, their P-values based on MAX can be calculated and compared with the significance level...
  27. ncbi request reprint Characterization of the major histocompatibility complex class II DQB (MhcMamu-DQB1) alleles in a cohort of Chinese rhesus macaques (Macaca mulatta)
    Chen Li Qiu
    State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS STD Control and Prevention, Beijing 100050, People s Republic of China
    Hum Immunol 69:513-21. 2008
    ....
  28. pmc Flexible design for following up positive findings
    Kai Yu
    Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD, USA
    Am J Hum Genet 81:540-51. 2007
    ..We also find that, in the context of flexible design, the joint analysis is generally more powerful than the replication analysis...
  29. ncbi request reprint Fibroblast growth factor receptors cooperate to regulate neural progenitor properties in the developing midbrain and hindbrain
    Jonna Saarimäki-Vire
    Institute of Biotechnology, Viikki Biocenter, University of Helsinki, 00014 Helsinki, Finland
    J Neurosci 27:8581-92. 2007
    ..We propose a model for regulation of progenitor cell self-renewal and neuronal differentiation by combinatorial intercellular signals in the ventral midbrain...
  30. pmc A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer
    David J Hunter
    Channing Laboratory, Department of Medicine, Brigham and Women s Hospital and Harvard Medical School, Boston, Massachusetts 02115, USA
    Nat Genet 39:870-4. 2007
    ..Our summary results from the GWAS are available online in a form that should speed the identification of additional risk loci...
  31. ncbi request reprint Genome-wide association study of prostate cancer identifies a second risk locus at 8q24
    Meredith Yeager
    SAIC Frederick, National Cancer Institute NCI Frederick Cancer Research and Development Center, Frederick, Maryland 21702, USA
    Nat Genet 39:645-9. 2007
    ..We estimate that the population attributable risk of the new locus, marked by rs6983267, is higher than the locus marked by rs1447295 (21% versus 9%)...
  32. ncbi request reprint A partially linear tree-based regression model for assessing complex joint gene-gene and gene-environment effects
    Jinbo Chen
    Department of Biostatistics and Epidemiology, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania 19104, USA
    Genet Epidemiol 31:238-51. 2007
    ..The proposed model is also useful for exploring gene-environment interactions and has broad implications for applying the tree methodology to genetic epidemiology research...
  33. ncbi request reprint Fibroblast growth factor receptor 2 tyrosine kinase is required for prostatic morphogenesis and the acquisition of strict androgen dependency for adult tissue homeostasis
    Yongshun Lin
    Center for Cancer Biology and Nutrition, Institute of Biosciences and Technology, Texas A and M Health Science Center, 2121 W Holcombe Blvd, Houston, TX 77030 3303, USA
    Development 134:723-34. 2007
    ....
  34. ncbi request reprint Abnormalities in cartilage and bone development in the Apert syndrome FGFR2(+/S252W) mouse
    Yingli Wang
    Institute of Genetic Medicine, Department of Pediatrics, The Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, MD 21205, USA
    Development 132:3537-48. 2005
    ..Our results suggest that altered cartilage and bone development play a significant role in the pathogenesis of the Apert syndrome phenotype...
  35. ncbi request reprint Methods for analyzing the spatial distribution of chiasmata during meiosis based on recombination data
    Kai Yu
    Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh, Pennsylvania 15261, USA
    Biometrics 58:369-77. 2002
    ..We apply our improved methods to reanalyze a dataset from the literature studying the association between crossover location and meiotic nondisjunction of chromosome 21...
  36. ncbi request reprint FGF signalling generates ventral telencephalic cells independently of SHH
    Grigoriy Gutin
    Departments of Neuroscience and Molecular Genetics, Albert Einstein College of Medicine, 1410 Pelham Parkway South, Bronx, NY 10461, USA
    Development 133:2937-46. 2006
    ..Moreover, the Fgfr1;Fgfr2 phenotype, unlike the Shh phenotype, is not rescued by loss of Gli3, further indicating that FGFs act downstream of Shh and Gli3 to generate ventral telencephalic cell types...
  37. ncbi request reprint A twist code determines the onset of osteoblast differentiation
    Peter Bialek
    Department of Molecular and Human Genetics, Bone Disease Program of Texas, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Dev Cell 6:423-35. 2004
    ..In vivo mutagenesis confirms the antiosteogenic function of the Twist box. Thus, relief of inhibition by Twist proteins is a mandatory event precluding osteoblast differentiation...
  38. ncbi request reprint Twist regulates cytokine gene expression through a negative feedback loop that represses NF-kappaB activity
    Drazen Sosic
    Department of Molecular Biology, University of Texas Southwestern Medical Center, 6000 Harry Hines Boulevard, Dallas, TX 75390, USA
    Cell 112:169-80. 2003
    ..These findings reveal an evolutionarily conserved signaling circuit in which twist proteins regulate cytokine signaling by establishing a negative feedback loop that represses the NF-kappaB-dependent cytokine pathway...
  39. pmc Association between maternal age and meiotic recombination for trisomy 21
    Neil E Lamb
    Department of Human Genetics, Emory University, 615 Michael Street, Atlanta, GA 30322, USA
    Am J Hum Genet 76:91-9. 2005
    ..It is this risk, due to recombination-independent factors, that would be most influenced by increasing age, leading to the observed maternal age effect...
  40. pmc Mutations that cause osteoglophonic dysplasia define novel roles for FGFR1 in bone elongation
    Kenneth E White
    Department of Medical and Molecular Genetics, Indiana University School of Medicine, Indianapolis, IN, USA
    Am J Hum Genet 76:361-7. 2005
    ....
  41. ncbi request reprint Assessing performance of prediction rules in machine learning
    Rory Martin
    Millennium Pharmaceuticals, Cambridge MA 02139, USA
    Pharmacogenomics 7:543-50. 2006
    ..This study illustrates and compares different methods for estimating true error with the aim of providing practical guidance to users of machine learning techniques...
  42. ncbi request reprint Circulating angiogenic factors and placental abruption
    Caroline Signore
    Epidemiology Branch and the Biometry and Mathematical Statistics Branch, National Institute of Child Health and Human Development, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA
    Obstet Gynecol 108:338-44. 2006
    ..Our objective was to determine whether circulating angiogenic factors are altered in another placental vascular disease, abruptio placentae...
  43. ncbi request reprint Toxicogenomics strategies for predicting drug toxicity
    Rory Martin
    Millennium Pharmaceuticals, Cambridge, MA 02139, USA
    Pharmacogenomics 7:1003-16. 2006
    ....
  44. ncbi request reprint Karyotyping of comparative genomic hybridization human metaphases using kernel nearest-neighbor algorithm
    Kai Yu
    State Key Laboratory of Intelligent Technology and Systems, Department of Automation, Tsinghua University, Beijing, People s Republic of China
    Cytometry 48:202-8. 2002
    ..In the past, computer-aided karyotyping was done by using the 4',6-diamidino-2-phenylindole, dihydrochloride (DAPI)-inverse images, which required complex image enhancement procedures...