Tianhua Niu

Summary

Affiliation: Harvard University
Country: USA

Publications

  1. pmc An expectation-maximization-likelihood-ratio test for handling missing data: application in experimental crosses
    Tianhua Niu
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02215, USA
    Genetics 169:1021-31. 2005
  2. ncbi request reprint Dynamic visual data mining: biological sequence analysis and annotation using SeqVISTA
    Tianhua Niu
    Department of Meidcine, Brigham and Women s Hospital, Boston, MA 02215, USA
    Int J Bioinform Res Appl 1:18-30. 2005
  3. ncbi request reprint Algorithms for inferring haplotypes
    Tianhua Niu
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02215, USA
    Genet Epidemiol 27:334-47. 2004
  4. pmc SNPHunter: a bioinformatic software for single nucleotide polymorphism data acquisition and management
    Lin Wang
    Program for Population Genetics, Harvard School of Public Health, Boston, MA 02115, USA
    BMC Bioinformatics 6:60. 2005
  5. ncbi request reprint Prolylcarboxypeptidase gene, chronic hypertension, and risk of preeclampsia
    Lin Wang
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Obstet Gynecol 195:162-71. 2006
  6. ncbi request reprint Relation of body composition, fat mass, and serum lipids to osteoporotic fractures and bone mineral density in Chinese men and women
    Yi Hsiang Hsu
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Clin Nutr 83:146-54. 2006
  7. pmc FTO polymorphisms are associated with obesity but not diabetes risk in postmenopausal women
    Yiqing Song
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital and Harvard Medical School, Boston, Massachusetts, USA
    Obesity (Silver Spring) 16:2472-80. 2008
  8. ncbi request reprint Large-scale genome-wide linkage analysis for loci linked to BMD at different skeletal sites in extreme selected sibships
    Yi Hsiang Hsu
    Harvard School of Public Health, Boston, Massachusetts, USA
    J Bone Miner Res 22:184-94. 2007
  9. pmc Common genetic variants of the ion channel transient receptor potential membrane melastatin 6 and 7 (TRPM6 and TRPM7), magnesium intake, and risk of type 2 diabetes in women
    Yiqing Song
    Department of Medicine, Division of Preventive Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, MA, USA
    BMC Med Genet 10:4. 2009
  10. pmc Missense polymorphisms in matrix metalloproteinase genes and skin cancer risk
    Hongmei Nan
    Program in Molecular and Genetic Epidemiology, Department of Epidemiology, Harvard School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA
    Cancer Epidemiol Biomarkers Prev 17:3551-7. 2008

Collaborators

Detail Information

Publications48

  1. pmc An expectation-maximization-likelihood-ratio test for handling missing data: application in experimental crosses
    Tianhua Niu
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02215, USA
    Genetics 169:1021-31. 2005
    ..The EM-LRT method may have important implications in QTL mapping in experimental crosses...
  2. ncbi request reprint Dynamic visual data mining: biological sequence analysis and annotation using SeqVISTA
    Tianhua Niu
    Department of Meidcine, Brigham and Women s Hospital, Boston, MA 02215, USA
    Int J Bioinform Res Appl 1:18-30. 2005
    ....
  3. ncbi request reprint Algorithms for inferring haplotypes
    Tianhua Niu
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02215, USA
    Genet Epidemiol 27:334-47. 2004
    ....
  4. pmc SNPHunter: a bioinformatic software for single nucleotide polymorphism data acquisition and management
    Lin Wang
    Program for Population Genetics, Harvard School of Public Health, Boston, MA 02115, USA
    BMC Bioinformatics 6:60. 2005
    ..Selection and retrieval of an optimal SNP set from publicly available databases have emerged as the foremost bottlenecks in designing large-scale linkage disequilibrium studies, particularly in case-control settings...
  5. ncbi request reprint Prolylcarboxypeptidase gene, chronic hypertension, and risk of preeclampsia
    Lin Wang
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Obstet Gynecol 195:162-71. 2006
    ..Prolylcarboxypeptidase encodes a lysosomal enzyme and is a regulator for both renin-angiotensin system and the kallikrein-kinin system. There is no published study on prolylcarboxypeptidase gene and preeclampsia...
  6. ncbi request reprint Relation of body composition, fat mass, and serum lipids to osteoporotic fractures and bone mineral density in Chinese men and women
    Yi Hsiang Hsu
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Clin Nutr 83:146-54. 2006
    ..Higher fat mass may be an independent risk factor for osteoporosis and osteoporotic fractures...
  7. pmc FTO polymorphisms are associated with obesity but not diabetes risk in postmenopausal women
    Yiqing Song
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital and Harvard Medical School, Boston, Massachusetts, USA
    Obesity (Silver Spring) 16:2472-80. 2008
    ..In conclusion, common genetic variants in the intron 1 of FTO gene may confer a modest susceptibility to obesity in an ethnicity-specific manner, but may be unlikely to contribute to a clinically significant diabetes risk...
  8. ncbi request reprint Large-scale genome-wide linkage analysis for loci linked to BMD at different skeletal sites in extreme selected sibships
    Yi Hsiang Hsu
    Harvard School of Public Health, Boston, Massachusetts, USA
    J Bone Miner Res 22:184-94. 2007
    ..Our results indicated four genome-wide significant QTLs for BMD. In comparison with 12 previous reported linkage studies, we reveal novel linkage regions that have reaching global significance...
  9. pmc Common genetic variants of the ion channel transient receptor potential membrane melastatin 6 and 7 (TRPM6 and TRPM7), magnesium intake, and risk of type 2 diabetes in women
    Yiqing Song
    Department of Medicine, Division of Preventive Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, MA, USA
    BMC Med Genet 10:4. 2009
    ..However, it is unclear whether common genetic variation in TRPM6 and TRPM7 contributes to risk of type 2 diabetes...
  10. pmc Missense polymorphisms in matrix metalloproteinase genes and skin cancer risk
    Hongmei Nan
    Program in Molecular and Genetic Epidemiology, Department of Epidemiology, Harvard School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA
    Cancer Epidemiol Biomarkers Prev 17:3551-7. 2008
    ..No associations were found for other SNPs with skin cancer risk. This study provides evidence for the contribution of the MMP9 Arg668Gln to SCC development...
  11. pmc Interleukin and interleukin receptor gene polymorphisms and susceptibility to melanoma
    Fangyi Gu
    Department of aEpidemiology, Program in Molecular and Genetic Epidemiology, Harvard School of Public Health, Boston, Massachusetts 02115, USA
    Melanoma Res 18:330-5. 2008
    ..93 to 1.03. We did not find significant results for the SNPs in the other four genes. These data suggest the involvement of IL-6R in melanoma development. Further studies are needed to confirm these findings...
  12. doi request reprint Genetic variants in the UCP2-UCP3 gene cluster and risk of diabetes in the Women's Health Initiative Observational Study
    Yi Hsiang Hsu
    Institute for Aging Research, Hebrew Senior Life and Harvard Medical School, Boston, Massachusetts, USA
    Diabetes 57:1101-7. 2008
    ..Genetic variants in the UCP2-UCP3 gene cluster, located on chromosome 11q13, may play a significant role in the development of type 2 diabetes...
  13. ncbi request reprint Variation in genes involved in the RANKL/RANK/OPG bone remodeling pathway are associated with bone mineral density at different skeletal sites in men
    Yi Hsiang Hsu
    Program for Population Genetics, Harvard School of Public Health, 665 Huntington Avenue, FXB 101, Boston, MA, USA
    Hum Genet 118:568-77. 2006
    ..Our findings suggest that genetic variation in genes involved in the RANKL/RANK/OPG bone remodeling pathway are strongly associated with BMD at different skeletal sites in adult men, but not in women...
  14. ncbi request reprint A candidate gene association study on preterm delivery: application of high-throughput genotyping technology and advanced statistical methods
    Ke Hao
    Program for Population Genetics, Harvard School of Public Health, Boston, MA 02115, USA
    Hum Mol Genet 13:683-91. 2004
    ....
  15. ncbi request reprint Genetic variants of the lipoprotein lipase gene and myocardial infarction in the Central Valley of Costa Rica
    Yadong Yang
    Department of Nutrition, Harvard University School of Public Health, Boston, MA, USA
    J Lipid Res 45:2106-9. 2004
    ..The X447 mutant allele of the LPL gene may protect from MI risk, although this effect is small...
  16. pmc Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms
    Tianhua Niu
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Hum Genet 70:157-69. 2002
    ....
  17. doi request reprint Large-scale evaluation of genetic variants in candidate genes for colorectal cancer risk in the Nurses' Health Study and the Health Professionals' Follow-up Study
    Aditi Hazra
    Program in Molecular and Genetic Epidemiology, Department of Epidemiology, Harvard School of Public Health, Brigham and Women s Hospital and Harvard Medical School, Boston, MA 02115, USA
    Cancer Epidemiol Biomarkers Prev 17:311-9. 2008
    ..00003). The SNP500Cancer database and the Illumina GoldenGate Assay allowed us to test a larger number of SNPs than previously possible. We identified several SNPs worthy of investigation in larger studies...
  18. pmc Genetic variation in DNA repair pathway genes and premenopausal breast cancer risk
    Jiali Han
    Channing Laboratory, Department of Medicine, Brigham and Women s Hospital, 181 Longwood Ave, Boston, MA 02115, USA
    Breast Cancer Res Treat 115:613-22. 2009
    ..We comprehensively evaluated genetic variants in DNA repair genes with premenopausal breast cancer risk...
  19. ncbi request reprint PON1 polymorphism, diabetes mellitus, obesity, and risk of myocardial infarction: Modifying effect of diabetes mellitus and obesity on the association between PON1 polymorphism and myocardial infarction
    Jianping Li
    Program for Population Genetics, Harvard School of Public Health, Boston, Massachusetts, USA
    Genet Med 7:58-63. 2005
    ..We investigated the association between PON1 Q192R polymorphism and the risk of myocardial infarction (MI) and in particular, whether the association can be modified by diabetes mellitus (DM) and obesity...
  20. ncbi request reprint SNPicker: a graphical tool for primer picking in designing mutagenic endonuclease restriction assays
    Tianhua Niu
    Division of Preventive Medicine, Brigham and Women s Hospital, Harvard Medical School, 900 Commonwealth Avenue, MA 02215, USA
    Bioinformatics 20:3263-5. 2004
    ..The SNP assays designed using SNPicker were cross-validated using the MassARRAY technology...
  21. pmc A common haplotype of the nicotine acetylcholine receptor alpha 4 subunit gene is associated with vulnerability to nicotine addiction in men
    Yan Feng
    Program for Population Genetics, Harvard School of Public Health, Boston, MA, USA
    Am J Hum Genet 75:112-21. 2004
    ..31, P<.005) or RTQ scores (Z=-2.73, P=.006). Our findings provide strong evidence suggesting a common CHRNA4 haplotype might be protective against vulnerability to nicotine addiction in men...
  22. ncbi request reprint Single-nucleotide polymorphisms of the KCNS3 gene are significantly associated with airway hyperresponsiveness
    Ke Hao
    Program for Population Genetics, Harvard School of Public Health, 665 Huntington Avenue FXB 101, Boston, MA 02115, USA
    Hum Genet 116:378-83. 2005
    ..Haplotype analysis also detected significant association (P=0.006). Our findings suggest that SNPs located at the 3' downstream region of KCNS3 have a significant role in the etiology of AHR...
  23. ncbi request reprint A prospective study of the APOA1 XmnI and APOC3 SstI polymorphisms in the APOA1/C3/A4 gene cluster and risk of incident myocardial infarction in men
    Simin Liu
    Department of Medicine, Division of Preventive Medicine, Brigham and Women s Hospital and Harvard Medical School, 900 Commonwealth Avenue East, Boston, MA 02215, USA
    Atherosclerosis 177:119-26. 2004
    ..However, whether genetic variations in the APOA1/C3/A4 gene cluster are associated with the risk of myocardial infarction (MI) remains uncertain and prospective data are sparse...
  24. pmc A sparse marker extension tree algorithm for selecting the best set of haplotype tagging single nucleotide polymorphisms
    Ke Hao
    Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02215, USA
    Genet Epidemiol 29:336-52. 2005
    ..Our study suggests that the novel SMET algorithm is a valuable tool for association tests...
  25. ncbi request reprint Familial aggregation of bone mineral density and bone mineral content in a Chinese population
    Yan Feng
    Program for Population Genetics, Harvard School of Public Health, Boston, Massachusetts, MA 02115, USA
    Osteoporos Int 16:1917-23. 2005
    ..39)], 8.71 (95% CI 5.74-13.22) and 5.90 (95% CI 3.57-9.76) for total body, total hip and lumbar spine, respectively. This study demonstrates a significant familial aggregation of BMD and BMC in a large sample of rural Chinese adults...
  26. pmc SeqVISTA: a graphical tool for sequence feature visualization and comparison
    Zhenjun Hu
    Bioinformatics Program, Boston University, Boston, MA, 02215, USA
    BMC Bioinformatics 4:1. 2003
    ..But now you want to see what other features have been annotated close by, and this information is buried several screenfuls higher up the web page...
  27. pmc Are variants in the CAPN10 gene related to risk of type 2 diabetes? A quantitative assessment of population and family-based association studies
    Yiqing Song
    Division of Preventive Medicine, Harvard Medical School and Brigham and Women s Hospital, Boston, MA 02215, USA
    Am J Hum Genet 74:208-22. 2004
    ..Our findings also suggest that both large-scale, well-designed association studies and functional studies are warranted to either reliably confirm or conclusively refute the initial hypothesis regarding the role of CAPN10 in T2D risk...
  28. ncbi request reprint Angiotensin converting enzyme gene insertion/deletion polymorphism and cardiovascular disease: therapeutic implications
    Tianhua Niu
    Program for Population Genetics, Harvard School of Public Health, 665 Huntington Avenue, Boston, FXB 101, MA 02115 6195, USA
    Drugs 62:977-93. 2002
    ..Furthermore, the dissection of the genetic underpinning of cardiovascular disease needs delineation of all molecular variants of the key physiological pathways that influence cardiovascular function...
  29. ncbi request reprint The insulin-like growth factor-I gene and osteoporosis: a critical appraisal
    Tianhua Niu
    Division of Preventive Medicine, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02215, USA
    Gene 361:38-56. 2005
    ..Molecular dissection of the IGF regulatory system and its signaling pathway in bone may reveal novel therapeutic targets for the treatment of osteoporosis...
  30. ncbi request reprint Maternal cigarette smoking, metabolic gene polymorphism, and infant birth weight
    Xiaobin Wang
    Department of Pediatrics, Boston University School of Medicine and Boston Medical Center, 91 E Concord St, Maternity 4, Boston, MA 02118, USA
    JAMA 287:195-202. 2002
    ..Little is known about genetic susceptibility to cigarette smoke in relation to adverse pregnancy outcomes...
  31. ncbi request reprint A common haplotype on methylenetetrahydrofolate reductase gene modifies the effect of angiotensin-converting enzyme inhibitor on blood pressure in essential hypertension patients--a family-based association study
    Shanqun Jiang
    School of Life Sciences, University of Science and Technology of China, Hefei, China
    Clin Exp Hypertens 27:509-21. 2005
    ..009 in an additive model and 0.006 in a dominant model. Our findings suggest that MTHFR 677C-1298C haplotype modulate blood pressure responsiveness to shortterm treatment of ACE inhibitor in Chinese essential hypertensive patients...
  32. ncbi request reprint The linkage information content value of polymorphism genetic markers in model-free linkage analysis
    Xiuqing Guo
    Division of Medical Genetics, Department of Medicine and Pediatrics, Spielberg Pediatrics Research Center, Burns and Allen Research Institute, Cedars Sinai Medical Center, Los Angeles, Calif 90048, USA
    Hum Hered 53:45-8. 2002
    ..In this paper, we give corrected LIC values for full sib, grandparent-grandchild, first cousin and avuncular pairs, and indicate the availability of a computer program to calculate them...
  33. ncbi request reprint Insertion/deletion polymorphism of the ACE gene is associated with type 2 diabetes
    Yan Feng
    Division of Endocrinology, the Third Affiliated Hospital of Beijing University, Beijing, China
    Diabetes 51:1986-8. 2002
    ..77, P = 0.03), suggesting that the DD genotype is associated with an increased susceptibility to type 2 diabetes in our study population...
  34. ncbi request reprint D919G polymorphism of methionine synthase gene is associated with blood pressure response to benazepril in Chinese hypertensive patients
    Yan Zhang
    Department of Cardiology, Peking University First Hospital, 100034, Beijing, China
    J Hum Genet 49:296-301. 2004
    ..Our finding suggests that the D919G polymorphism of the MTR gene may be a useful genetic marker to predict the antihypertensive effect of short-term benazepril therapy in hypertensive patients of Anhui Province, China...
  35. pmc Partition-ligation-expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms
    Zhaohui S Qin
    Am J Hum Genet 71:1242-7. 2002
  36. pmc Haplotype information and linkage disequilibrium mapping for single nucleotide polymorphisms
    Xin Lu
    Department of Statistics, Harvard University, Cambridge, Massachusetts 02138, USA
    Genome Res 13:2112-7. 2003
    ..An improved version of the linkage disequilibrium mapping program, BLADE v2, is available at http://www.fas.harvard.edu/junliu/TechRept/03folder/bladev2.tgz...
  37. ncbi request reprint SNPHunter: a versatile web-based tool for acquiring and managing single nucleotide polymorphisms
    Tianhua Niu
    Methods Mol Biol 396:359-69. 2007
    ..The SNP data extracted from dbSNP via SNPHunter can be exported and saved in plain text format for further down-stream analyses...
  38. ncbi request reprint Role of the endothelin-1 gene locus for renal impairment in the general nondiabetic population
    Sara Joan Pinto-Sietsma
    Department of Internal Medicine, Division of Nephrology, Academic Hospital Groningen, University Groningen, Groningen, The Netherlands
    J Am Soc Nephrol 14:2596-602. 2003
    ....
  39. ncbi request reprint The C677T polymorphism of the methylenetetrahydrofolate reductase gene is associated with the level of decrease on diastolic blood pressure in essential hypertension patients treated by angiotensin-converting enzyme inhibitor
    Shanqun Jiang
    School of Life Sciences, University of Science and Technology of China, Hefei, China
    Thromb Res 113:361-9. 2004
    ..The purpose of this study was to investigate whether short-term blood pressure control by benazepril, an ACE inhibitor, was modulated by C677T MTHFR gene polymorphism...
  40. pmc A coalescence-guided hierarchical Bayesian method for haplotype inference
    Yu Zhang
    Department of Statistics, Harvard University, Cambridge, MA 02138, USA
    Am J Hum Genet 79:313-22. 2006
    ....
  41. ncbi request reprint Association between polymorphism of the dopamine transporter gene and early smoking onset: an interaction risk on nicotine dependence
    Daijun Ling
    School of Life Science, University of Science and Technology of China, Hefei, Anhui 230027, PR China
    J Hum Genet 49:35-9. 2004
    ....
  42. pmc Incorporating genotyping uncertainty in haplotype inference for single-nucleotide polymorphisms
    Hosung Kang
    Department of Statistics, Harvard University, Cambridge, MA 02138, USA
    Am J Hum Genet 74:495-510. 2004
    ....
  43. ncbi request reprint Associations of baseline blood pressure levels and efficacy of Benazepril treatment with interaction of alpha-adducin and ACE gene polymorphisms in hypertensives
    Yunxian Yu
    School of Life Science, University of Science and Technology of China, Hefei, Anhui, China
    Clin Exp Hypertens 27:83-94. 2005
    ..Our results suggested that the interaction effect of alpha-adducin Gly460Trp and ACE I/D polymorphisms might play a significant role in regulating baseline BP but not BP response to Benazepril...
  44. ncbi request reprint beta(3) Adrenergic receptor polymorphism and obesity-related phenotypes in hypertensive patients
    Ke Hao
    Institute of Biomedicine, Anhui Medical University, Hefei, China
    Obes Res 12:125-30. 2004
    ..The current study assessed the association between the W64R genotype and obesity-related phenotypes, including body weight, BMI, and serum triglycerides, cholesterol, and glucose...
  45. ncbi request reprint Beta2 adrenergic receptor gene Arg16Gly polymorphism is associated with therapeutic efficacy of benazepril on essential hypertension in Chinese
    Guo Huang
    School of Life Science, University of Science and Technology of China, Hefei, China
    Clin Exp Hypertens 26:581-92. 2004
    ..This study examined whether the therapeutic efficacy of benazepril on essential hypertension is modified by beta2 adrenergic receptor gene (ADRB2) Arg16Gly (R16G) polymorphism...
  46. ncbi request reprint Association of GYS1 and beta(3)-AR gene with postprandial hyperglycemia and serum uric acid in type 2 diabetes mellitus
    Guoying Wang
    Department of Endocrinology, The Third Hospital of Beijing University, China
    Chin Med J (Engl) 115:1308-11. 2002
    ....
  47. ncbi request reprint Association between the interleukin-1beta C(-511)T polymorphism and blood pressure in a Chinese hypertensive population
    Guo Huang
    School of Life Sciences, University of Science and Technology of China, Hefei
    Immunol Lett 91:159-62. 2004
    ..Our results suggested a significant role of the IL-1beta C(-511)T polymorphism in the control of blood pressure in Chinese hypertensives...
  48. ncbi request reprint Familial aggregation of forearm bone mineral density in Chinese
    Xiumei Hong
    Center for Population Genetics, Division of Epidemiology and Biostatistics, School of Public Health M C 923, University of Illinois at Chicago, 1603 W Taylor, Rm 978B, Chicago, IL 60612, USA
    Eur J Epidemiol 22:335-41. 2007
    ..Our findings showing strong familial aggregation of both proximal and distal forearm BMD values suggest that genetic factors play a significant role in determining both traits...