메뉴 건너뛰기




Volumn 4, Issue 1, 2007, Pages 27-34

Guideline for data analysis of genomewide association studies

Author keywords

Genomewide association; Haplotype; Multiple comparisons; SNP; Study design

Indexed keywords

CANCER; CANCER GROWTH; CANCER STAGING; ENVIRONMENTAL FACTOR; GENE IDENTIFICATION; GENE INTERACTION; GENE STRUCTURE; GENOME ANALYSIS; HEALTH CARE PLANNING; HEREDITY; LABORATORY TEST; MEDICAL ASSESSMENT; MEDICAL RECORD; MEDICAL RESEARCH; PRACTICE GUIDELINE; QUALITY CONTROL; REVIEW; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL ANALYSIS;

EID: 33947208504     PISSN: 11096535     EISSN: 17906245     Source Type: Journal    
DOI: None     Document Type: Review
Times cited : (5)

References (45)
  • 1
    • 0034017850 scopus 로고    scopus 로고
    • GOLD-graphical overview of linkage disequilibrium
    • Abecasis GR and Cookson WO: GOLD-graphical overview of linkage disequilibrium. Bioinformatics 16(2): 182-183, 2000.
    • (2000) Bioinformatics , vol.16 , Issue.2 , pp. 182-183
    • Abecasis, G.R.1    Cookson, W.O.2
  • 2
    • 2542542256 scopus 로고    scopus 로고
    • Ultraconserved elements in the human genome
    • Bejerano G, Pheasant M et al: Ultraconserved elements in the human genome. Science 304(5675): 1321-1325, 2004.
    • (2004) Science , vol.304 , Issue.5675 , pp. 1321-1325
    • Bejerano, G.1    Pheasant, M.2
  • 3
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to utiple testing
    • Benjamini Y and Hochberg Y: Controlling the false discovery rate: A practical and powerful approach to utiple testing. J Royal Statistical Society, Series B 57: 289-300, 1995.
    • (1995) J Royal Statistical Society, Series B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 4
    • 0034791035 scopus 로고    scopus 로고
    • High-resolution haplotype structure in the human genome
    • Daly MJ, Rioux JD et al: High-resolution haplotype structure in the human genome. Nat Genet 29(2): 229-32, 2001.
    • (2001) Nat Genet , vol.29 , Issue.2 , pp. 229-232
    • Daly, M.J.1    Rioux, J.D.2
  • 5
    • 33746041795 scopus 로고    scopus 로고
    • Complement factor H polymorphism, complement activators, and risk of age-related macular degeneration
    • Despriet DD, Klaver CC et al: Complement factor H polymorphism, complement activators, and risk of age-related macular degeneration. Jama 296(3): 301-309, 2006.
    • (2006) Jama , vol.296 , Issue.3 , pp. 301-309
    • Despriet, D.D.1    Klaver, C.C.2
  • 6
    • 0029130796 scopus 로고
    • Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population
    • Excoffier L and Slatkin M: Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population. Mol Biol Evol 12(5): 921-927, 1995.
    • (1995) Mol Biol Evol , vol.12 , Issue.5 , pp. 921-927
    • Excoffier, L.1    Slatkin, M.2
  • 7
    • 0035154452 scopus 로고    scopus 로고
    • Genetic analysis of case/control data using estimated haplotype frequencies: Application to APOE locus variation and Alzheimer's disease
    • Fallin D, Cohen A et al: Genetic analysis of case/control data using estimated haplotype frequencies: application to APOE locus variation and Alzheimer's disease. Genome Res 11(1): 143-151, 2001.
    • (2001) Genome Res , vol.11 , Issue.1 , pp. 143-151
    • Fallin, D.1    Cohen, A.2
  • 8
    • 18444369013 scopus 로고    scopus 로고
    • The structure of haplotype blocks in the human genome
    • Gabriel SB, Schaffner SF et al: The structure of haplotype blocks in the human genome. Science 296(5576): 2225-2229, 2002.
    • (2002) Science , vol.296 , Issue.5576 , pp. 2225-2229
    • Gabriel, S.B.1    Schaffner, S.F.2
  • 9
    • 0345196595 scopus 로고    scopus 로고
    • Power and sample size calculations in case-control studies of gene-environment interactions: Comments on different approaches
    • Garcia-Closas M and Lubin JH: Power and sample size calculations in case-control studies of gene-environment interactions: comments on different approaches. Am J Epidemiol 149(8): 689-692, 1999.
    • (1999) Am J Epidemiol , vol.149 , Issue.8 , pp. 689-692
    • Garcia-Closas, M.1    Lubin, J.H.2
  • 10
    • 0036499241 scopus 로고    scopus 로고
    • Sample size requirements for association studies of gene-gene interaction
    • Gauderman WJ: Sample size requirements for association studies of gene-gene interaction. Am J Epidemiol 155(5): 478-484, 2002.
    • (2002) Am J Epidemiol , vol.155 , Issue.5 , pp. 478-484
    • Gauderman, W.J.1
  • 11
    • 0031923684 scopus 로고    scopus 로고
    • Analytic strategies to detect linkage to a common disorder with genetically determined age of onset: Diabetes mellitus in Pima Indians
    • Hanson RL and Knowler WC: Analytic strategies to detect linkage to a common disorder with genetically determined age of onset: diabetes mellitus in Pima Indians. Genet Epidemiol 15(3): 299-315, 1998.
    • (1998) Genet Epidemiol , vol.15 , Issue.3 , pp. 299-315
    • Hanson, R.L.1    Knowler, W.C.2
  • 12
    • 0042881041 scopus 로고    scopus 로고
    • Mathematical multi-locus approaches to localizing complex human trait genes
    • Hoh J and Ott J: Mathematical multi-locus approaches to localizing complex human trait genes. Nat Rev Genet 4(9): 701-709, 2003.
    • (2003) Nat Rev Genet , vol.4 , Issue.9 , pp. 701-709
    • Hoh, J.1    Ott, J.2
  • 13
    • 18544362452 scopus 로고    scopus 로고
    • Dissecting the genetic complexity of the association between human leukocyte antigens and rheumatoid arthritis
    • Jawaheer D, Li W et al: Dissecting the genetic complexity of the association between human leukocyte antigens and rheumatoid arthritis. Am J Hum Genet 71(3): 585-594, 2002.
    • (2002) Am J Hum Genet , vol.71 , Issue.3 , pp. 585-594
    • Jawaheer, D.1    Li, W.2
  • 14
    • 20244380171 scopus 로고    scopus 로고
    • Complement factor H polymorphism in age-related macular degeneration
    • Klein RJ, Zeiss C et al: Complement factor H polymorphism in age-related macular degeneration. Science 308(5720): 385-389, 2005.
    • (2005) Science , vol.308 , Issue.5720 , pp. 385-389
    • Klein, R.J.1    Zeiss, C.2
  • 15
    • 0028090414 scopus 로고
    • Genetic dissection of complex traits
    • Lander ES and Schork NJ: Genetic dissection of complex traits. Science 265(5181): 2037-2048, 1994.
    • (1994) Science , vol.265 , Issue.5181 , pp. 2037-2048
    • Lander, E.S.1    Schork, N.J.2
  • 16
    • 2942562810 scopus 로고    scopus 로고
    • Apolipoprotein E controls the risk and age at onset of Parkinson disease
    • Li YJ, Hauser MA et al: Apolipoprotein E controls the risk and age at onset of Parkinson disease. Neurology 62(11): 2005-2009, 2004.
    • (2004) Neurology , vol.62 , Issue.11 , pp. 2005-2009
    • Li, Y.J.1    Hauser, M.A.2
  • 17
    • 6344267228 scopus 로고    scopus 로고
    • Livingston RJ, A von Niederhausern et al: Pattern of sequence variation across 213 environmental response genes. Genome Res 14(10A): 1821-1831, 2004.
    • Livingston RJ, A von Niederhausern et al: Pattern of sequence variation across 213 environmental response genes. Genome Res 14(10A): 1821-1831, 2004.
  • 18
    • 0025099777 scopus 로고
    • On power and sample size for studying features of the relative odds of disease
    • Lubin JH and Gail MH: On power and sample size for studying features of the relative odds of disease. Am J Epidemiol 131(3): 552-566, 1990.
    • (1990) Am J Epidemiol , vol.131 , Issue.3 , pp. 552-566
    • Lubin, J.H.1    Gail, M.H.2
  • 19
    • 16844366786 scopus 로고    scopus 로고
    • Genome-wide strategies for detecting multiple loci that influence complex diseases
    • Marchini J, P Donnelly et al: Genome-wide strategies for detecting multiple loci that influence complex diseases. Nat Genet 37(4): 413-417, 2005.
    • (2005) Nat Genet , vol.37 , Issue.4 , pp. 413-417
    • Marchini, J.1    Donnelly, P.2
  • 21
    • 4043128071 scopus 로고    scopus 로고
    • Genetic analysis of genome-wide variation in human gene expression
    • Morley M, Molony CM et al: Genetic analysis of genome-wide variation in human gene expression. Nature 430(7001): 743-747, 2004.
    • (2004) Nature , vol.430 , Issue.7001 , pp. 743-747
    • Morley, M.1    Molony, C.M.2
  • 22
    • 23944481324 scopus 로고    scopus 로고
    • Direct analysis of unphased SNP genotype data in population-based association studies via Bayesian partition modelling of haplotypes
    • Morris AP: Direct analysis of unphased SNP genotype data in population-based association studies via Bayesian partition modelling of haplotypes. Genet Epidemiol 29(2): 91-107, 2005.
    • (2005) Genet Epidemiol , vol.29 , Issue.2 , pp. 91-107
    • Morris, A.P.1
  • 23
    • 0043122919 scopus 로고    scopus 로고
    • SIFT: Predicting amino acid changes that affect protein function
    • Ng PC and Henikoff S: SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res 31(13): 3812-3814, 2003.
    • (2003) Nucleic Acids Res , vol.31 , Issue.13 , pp. 3812-3814
    • PC, N.1    Henikoff, S.2
  • 24
    • 10044232695 scopus 로고    scopus 로고
    • Algorithms for inferring haplotypes
    • Niu T: Algorithms for inferring haplotypes. Genet Epidemiol 27(4): 334-347, 2004.
    • (2004) Genet Epidemiol , vol.27 , Issue.4 , pp. 334-347
    • Niu, T.1
  • 25
    • 0035941029 scopus 로고    scopus 로고
    • Blocks of limited haplotype diversity revealed by high-resolution scanning of human chromosome 21
    • Patil N, Berno AJ et al: Blocks of limited haplotype diversity revealed by high-resolution scanning of human chromosome 21. Science 294(5547): 1719-1723, 2001.
    • (2001) Science , vol.294 , Issue.5547 , pp. 1719-1723
    • Patil, N.1    Berno, A.J.2
  • 26
    • 17344371740 scopus 로고    scopus 로고
    • High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays
    • Pinkel D, Segraves R et al: High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays. Nat Genet 20(2): 207-211, 1998.
    • (1998) Nat Genet , vol.20 , Issue.2 , pp. 207-211
    • Pinkel, D.1    Segraves, R.2
  • 27
    • 0033358548 scopus 로고    scopus 로고
    • Use of unlinked genetic markers to detect population stratification in association studies
    • Pritchard JK and Rosenberg NA: Use of unlinked genetic markers to detect population stratification in association studies. Am J Hum Genet 65(1): 220-228, 1999.
    • (1999) Am J Hum Genet , vol.65 , Issue.1 , pp. 220-228
    • Pritchard, J.K.1    Rosenberg, N.A.2
  • 28
    • 0034041234 scopus 로고    scopus 로고
    • Searching for genes in complex diseases: Lessons from systemic lupus erythematosus
    • Risch N: Searching for genes in complex diseases: lessons from systemic lupus erythematosus. J Clin Invest 105(11): 1503-1506, 2000.
    • (2000) J Clin Invest , vol.105 , Issue.11 , pp. 1503-1506
    • Risch, N.1
  • 29
    • 0036188784 scopus 로고    scopus 로고
    • Two-stage designs for gene-disease association studies
    • Satagopan JM, Verbel DA et al: Two-stage designs for gene-disease association studies. Biometrics 58(1): 163-170, 2002.
    • (2002) Biometrics , vol.58 , Issue.1 , pp. 163-170
    • Satagopan, J.M.1    Verbel, D.A.2
  • 30
    • 7444224111 scopus 로고    scopus 로고
    • Comparison of prospective and retrospective methods for haplotype inference in case-control studies
    • Satten GA and Epstein MP: Comparison of prospective and retrospective methods for haplotype inference in case-control studies. Genet Epidemiol 27(3): 192-201, 2004.
    • (2004) Genet Epidemiol , vol.27 , Issue.3 , pp. 192-201
    • Satten, G.A.1    Epstein, M.P.2
  • 31
    • 10044294770 scopus 로고    scopus 로고
    • Evaluating associations of haplotypes with traits
    • Schaid DJ: Evaluating associations of haplotypes with traits. Genet Epidemiol 27(4): 348-364, 2004.
    • (2004) Genet Epidemiol , vol.27 , Issue.4 , pp. 348-364
    • Schaid, D.J.1
  • 32
    • 32044443597 scopus 로고    scopus 로고
    • Logistic regression protects against population structure in genetic association studies
    • Setakis E, Stirnadel H et al: Logistic regression protects against population structure in genetic association studies. Genome Res 16(2): 290-296, 2005.
    • (2005) Genome Res , vol.16 , Issue.2 , pp. 290-296
    • Setakis, E.1    Stirnadel, H.2
  • 33
    • 0037020214 scopus 로고    scopus 로고
    • Sequence first. Ask questions later
    • Sidow A: Sequence first. Ask questions later. Cell 111(1): 13-16, 2002.
    • (2002) Cell , vol.111 , Issue.1 , pp. 13-16
    • Sidow, A.1
  • 34
    • 0037730225 scopus 로고    scopus 로고
    • The emperor's new methods
    • Spence MA, Greenberg DA et al: The emperor's new methods. Am J Hum Genet 72(5): 1084-1087, 2003.
    • (2003) Am J Hum Genet , vol.72 , Issue.5 , pp. 1084-1087
    • Spence, M.A.1    Greenberg, D.A.2
  • 35
    • 0035071957 scopus 로고    scopus 로고
    • A new statistical method for haplotype reconstruction from population data
    • Stephens M, Smith NJ et al: A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68(4): 978-89, 2001.
    • (2001) Am J Hum Genet , vol.68 , Issue.4 , pp. 978-989
    • Stephens, M.1    Smith, N.J.2
  • 36
    • 23944469845 scopus 로고    scopus 로고
    • Recent developments in genomewide association scans: A workshop summary and review
    • Thomas DC, Haile RW et al: Recent developments in genomewide association scans: a workshop summary and review. Am J Hum Genet 77(3): 337-345, 2005.
    • (2005) Am J Hum Genet , vol.77 , Issue.3 , pp. 337-345
    • Thomas, D.C.1    Haile, R.W.2
  • 37
    • 33745592507 scopus 로고    scopus 로고
    • Statistical false positive or true disease pathway?
    • Todd JA: Statistical false positive or true disease pathway? Nat Genet 38: 731-733, 2006.
    • (2006) Nat Genet , vol.38 , pp. 731-733
    • Todd, J.A.1
  • 38
    • 84890417804 scopus 로고
    • The Genetic Structure of Populations
    • Wright S: The Genetic Structure of Populations. Ann Eugen 15: 323-354, 1951.
    • (1951) Ann Eugen , vol.15 , pp. 323-354
    • Wright, S.1
  • 39
    • 2642527702 scopus 로고    scopus 로고
    • Many amino acid substitution variants identified in DNA repair genes during human population screenings are predicted to impact protein function
    • Xi T, IM Jones et al: Many amino acid substitution variants identified in DNA repair genes during human population screenings are predicted to impact protein function. Genomics 83(6): 970-979, 2004.
    • (2004) Genomics , vol.83 , Issue.6 , pp. 970-979
    • Xi, T.1    Jones, I.M.2
  • 40
    • 0033680875 scopus 로고    scopus 로고
    • Use of classification trees for association studies
    • Zhang H and G Bonney: Use of classification trees for association studies. Genet Epidemiol 19(4): 323-332, 2000.
    • (2000) Genet Epidemiol , vol.19 , Issue.4 , pp. 323-332
    • Zhang, H.1    Bonney, G.2
  • 42
    • 30344457455 scopus 로고    scopus 로고
    • Multivariate linkage analysis using the electrophysiological phenotypes in the COGA alcoholism data
    • Zhang H, Zhong X and Ye Y: Multivariate linkage analysis using the electrophysiological phenotypes in the COGA alcoholism data. BMC Genet 6 Suppl 1: S118, 2005.
    • (2005) BMC Genet , vol.6 , Issue.SUPPL. 1
    • Zhang, H.1    Zhong, X.2    Ye, Y.3
  • 43
    • 12744253764 scopus 로고    scopus 로고
    • HapBlock: Haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms
    • Zhang K, Qin Z et al: HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms. Bioinformatics 21(1): 131-134, 2005.
    • (2005) Bioinformatics , vol.21 , Issue.1 , pp. 131-134
    • Zhang, K.1    Qin, Z.2
  • 44
    • 0038406155 scopus 로고    scopus 로고
    • A method for the assessment of disease associations with single-nucleotide polymorphism haplotypes and environmental variables in case-control studies
    • Zhao LP, Li SS et al: A method for the assessment of disease associations with single-nucleotide polymorphism haplotypes and environmental variables in case-control studies. Am J Hum Genet 72(5): 1231-1250, 2003.
    • (2003) Am J Hum Genet , vol.72 , Issue.5 , pp. 1231-1250
    • Zhao, L.P.1    Li, S.S.2
  • 45
    • 1542405868 scopus 로고    scopus 로고
    • An evolutionary perspective on single-nucleotide polymorphism screening in molecular cancer epidemiology
    • Zhu Y, Spitz MR et al: An evolutionary perspective on single-nucleotide polymorphism screening in molecular cancer epidemiology. Cancer Res 64(6): 2251-2257, 2004.
    • (2004) Cancer Res , vol.64 , Issue.6 , pp. 2251-2257
    • Zhu, Y.1    Spitz, M.R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.