메뉴 건너뛰기




Volumn 4, Issue 4, 2009, Pages

Application of homozygosity haplotype analysis to genetic mapping with high-density SNP genotype data

Author keywords

[No Author keywords available]

Indexed keywords

BINDING PROTEIN; DIMETHYLALLYLTRANSFERASE; DOPAMINE 2 RECEPTOR; POLYCYSTIN 1; POLYCYSTIN 2; SARCOGLYCAN; TORSION DYSTONIA PROTEIN; UNCLASSIFIED DRUG;

EID: 65449170412     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0005280     Document Type: Article
Times cited : (20)

References (42)
  • 1
    • 35348983887 scopus 로고    scopus 로고
    • A second generation human haplotype map of over 3.1 million SNPs
    • The International HapMap Consortium
    • The International HapMap Consortium (2007) A second generation human haplotype map of over 3.1 million SNPs. Nature 449: 851-861.
    • (2007) Nature , vol.449 , pp. 851-861
  • 2
    • 37549056571 scopus 로고    scopus 로고
    • Identification of linked regions using high-density SNP genotype data in linkage analysis
    • Lin G, Wang Z, Wang L, Lau YL, Yang W (2008) Identification of linked regions using high-density SNP genotype data in linkage analysis. Bioinformatics 24: 86-93.
    • (2008) Bioinformatics , vol.24 , pp. 86-93
    • Lin, G.1    Wang, Z.2    Wang, L.3    Lau, Y.L.4    Yang, W.5
  • 3
    • 0034812677 scopus 로고    scopus 로고
    • Inference of haplotypes from samples of diploid populations: Complexity and algorithms
    • Gusfield D (2001) Inference of haplotypes from samples of diploid populations: complexity and algorithms. J Comput Biol 8: 305-323.
    • (2001) J Comput Biol , vol.8 , pp. 305-323
    • Gusfield, D.1
  • 4
    • 84943255398 scopus 로고    scopus 로고
    • Lancia G, Bafna V, Istrail S, Lippert R, Schwartz R (2001) SNPs problems, algorithms and complexity, European symposium on algorithms. Proceedings of the European Symposium on Algorithms (ESA-2001), Lecture Notes in Computer Science, 2161. Springer-Verlag. pp 182-193.
    • Lancia G, Bafna V, Istrail S, Lippert R, Schwartz R (2001) SNPs problems, algorithms and complexity, European symposium on algorithms. Proceedings of the European Symposium on Algorithms (ESA-2001), Lecture Notes in Computer Science, 2161. Springer-Verlag. pp 182-193.
  • 5
    • 0029130796 scopus 로고
    • Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population
    • Excoffier L, Slatkin M (1995) Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population. Mol Biol Evol 12: 921-927.
    • (1995) Mol Biol Evol , vol.12 , pp. 921-927
    • Excoffier, L.1    Slatkin, M.2
  • 6
    • 0033794938 scopus 로고    scopus 로고
    • Accuracy of haplotype frequency estimation for biallelic loci, via the expectation-maximization algorithm for unphased diploid genotype data
    • Fallin D, Schork N (2000) Accuracy of haplotype frequency estimation for biallelic loci, via the expectation-maximization algorithm for unphased diploid genotype data. Am J Hum Genet 67: 947-959.
    • (2000) Am J Hum Genet , vol.67 , pp. 947-959
    • Fallin, D.1    Schork, N.2
  • 7
    • 0029372419 scopus 로고
    • Haplo: A program using the EM algorithm to estimate the frequencies of multi-site haplotypes
    • Hawley M, Kidd K (1995) Haplo: a program using the EM algorithm to estimate the frequencies of multi-site haplotypes. J Heredity 86: 409-411.
    • (1995) J Heredity , vol.86 , pp. 409-411
    • Hawley, M.1    Kidd, K.2
  • 8
    • 0028913523 scopus 로고
    • An E-M algorithm and testing strategy for multiple-locus haplotypes
    • Long J, Williams R, Urbanek M (1995) An E-M algorithm and testing strategy for multiple-locus haplotypes. Am J Hum Genet 56: 799-810.
    • (1995) Am J Hum Genet , vol.56 , pp. 799-810
    • Long, J.1    Williams, R.2    Urbanek, M.3
  • 9
  • 10
    • 4444367508 scopus 로고    scopus 로고
    • Haplotype reconstruction from genotype data using Imperfect Phylogeny
    • Halperin E, Eskin E (2004) Haplotype reconstruction from genotype data using Imperfect Phylogeny. Bioinformatics 20: 1842-9.
    • (2004) Bioinformatics , vol.20 , pp. 1842-1849
    • Halperin, E.1    Eskin, E.2
  • 11
    • 0035071957 scopus 로고    scopus 로고
    • A new statistical method for haplotype reconstruction from population data
    • Stephens M, Smith N, Donnelly P (2001) A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68: 978-989.
    • (2001) Am J Hum Genet , vol.68 , pp. 978-989
    • Stephens, M.1    Smith, N.2    Donnelly, P.3
  • 12
    • 0036844521 scopus 로고    scopus 로고
    • Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms
    • Niu T, Qin Z, Xu X, Liu J (2002) Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms. Am J Hum Genet 71: 1242-1247.
    • (2002) Am J Hum Genet , vol.71 , pp. 1242-1247
    • Niu, T.1    Qin, Z.2    Xu, X.3    Liu, J.4
  • 13
    • 0028790963 scopus 로고
    • The VITESSE algorithm for rapid exact multilocus linkage analysis via genotype set-recoding and fuzzy inheritance
    • O'Connell JR, Weeks DE (1995) The VITESSE algorithm for rapid exact multilocus linkage analysis via genotype set-recoding and fuzzy inheritance. Nat Genet 11: 402-8.
    • (1995) Nat Genet , vol.11 , pp. 402-408
    • O'Connell, J.R.1    Weeks, D.E.2
  • 14
    • 0029886532 scopus 로고    scopus 로고
    • Parametric and Nonparametric Linkage Analysis: A Unified Multipoint Approach
    • Kruglyak L, Daly MJ, Reeve-Daly MP, Lander ES (1996) Parametric and Nonparametric Linkage Analysis: A Unified Multipoint Approach. Am J Hum Genet 58: 1347-1363.
    • (1996) Am J Hum Genet , vol.58 , pp. 1347-1363
    • Kruglyak, L.1    Daly, M.J.2    Reeve-Daly, M.P.3    Lander, E.S.4
  • 15
    • 0029945706 scopus 로고    scopus 로고
    • Descent graphs in pedigree analysis: Applications to haplotyping, location scores, and marker sharing statistics
    • Sobel E, Lange K (1996) Descent graphs in pedigree analysis: applications to haplotyping, location scores, and marker sharing statistics. Am J Hum Genet 58: 1323-1337.
    • (1996) Am J Hum Genet , vol.58 , pp. 1323-1337
    • Sobel, E.1    Lange, K.2
  • 16
    • 34250861479 scopus 로고    scopus 로고
    • Homozygosity haplotype allows a genomewide search for the autosomal segments shared among patients
    • Miyazawa H, Kato M, Awata T, Kohda M, Iwasa H, et al. (2007) Homozygosity haplotype allows a genomewide search for the autosomal segments shared among patients. Am J Hum Genet 80: 1090-102.
    • (2007) Am J Hum Genet , vol.80 , pp. 1090-1102
    • Miyazawa, H.1    Kato, M.2    Awata, T.3    Kohda, M.4    Iwasa, H.5
  • 18
    • 38449112757 scopus 로고    scopus 로고
    • Mutations in the UBIAD1 gene on chromosome short arm 1, region 36, cause Schnyder crystalline corneal dystrophy
    • Weiss JS, Kruth HS, Kuivaniemi H, Tromp G, White PS, et al. (2007) Mutations in the UBIAD1 gene on chromosome short arm 1, region 36, cause Schnyder crystalline corneal dystrophy. Invest Ophthalmol Vis Sci 48: 5007-12.
    • (2007) Invest Ophthalmol Vis Sci , vol.48 , pp. 5007-5012
    • Weiss, J.S.1    Kruth, H.S.2    Kuivaniemi, H.3    Tromp, G.4    White, P.S.5
  • 19
    • 34848859527 scopus 로고    scopus 로고
    • Identification of mutations in UBIAD1 following exclusion of coding mutations in the chromosome 1p36 locus for Schnyder crystalline corneal dystrophy
    • Yellore VS, Khan MA, Bourla N, Rayner SA, Chen MC, et al. (2007) Identification of mutations in UBIAD1 following exclusion of coding mutations in the chromosome 1p36 locus for Schnyder crystalline corneal dystrophy. Mol Vis 13: 1777-82.
    • (2007) Mol Vis , vol.13 , pp. 1777-1782
    • Yellore, V.S.1    Khan, M.A.2    Bourla, N.3    Rayner, S.A.4    Chen, M.C.5
  • 20
    • 65449172935 scopus 로고    scopus 로고
    • McKusick VA, Online Mendelian Inheritance in Man, OMIM (McKusick-Nathans Institute for Genetic Medicine, Johns Hopkins University and National Center for Biotechnology Information, National Library of Medicine, Baltimore and Bethesda, Maryland, 2000).
    • McKusick VA, Online Mendelian Inheritance in Man, OMIM (McKusick-Nathans Institute for Genetic Medicine, Johns Hopkins University and National Center for Biotechnology Information, National Library of Medicine, Baltimore and Bethesda, Maryland, 2000).
  • 21
    • 2942740963 scopus 로고    scopus 로고
    • Fine mapping of the Schnyder's crystalline corneal dystrophy locus
    • Theendakara V, Tromp G, Kuivaniemi H, White PS, Panchal S, et al. (2004) Fine mapping of the Schnyder's crystalline corneal dystrophy locus. Hum Genet 114: 594-600.
    • (2004) Hum Genet , vol.114 , pp. 594-600
    • Theendakara, V.1    Tromp, G.2    Kuivaniemi, H.3    White, P.S.4    Panchal, S.5
  • 22
    • 0033358595 scopus 로고    scopus 로고
    • Transmission/disequilibrium tests for extended marker haplotypes
    • Clayton DG, Jones H (1999) Transmission/disequilibrium tests for extended marker haplotypes. Am J Hum Genet 65: 1161-1169.
    • (1999) Am J Hum Genet , vol.65 , pp. 1161-1169
    • Clayton, D.G.1    Jones, H.2
  • 23
    • 0033913218 scopus 로고    scopus 로고
    • Family-based tests of association and linkage that use unaffected sibs, covariates, and interactions
    • Lunetta KL, Faraone SV, Biederman J, Laird NM (2000) Family-based tests of association and linkage that use unaffected sibs, covariates, and interactions. Am J Hum Genet 66: 605-14.
    • (2000) Am J Hum Genet , vol.66 , pp. 605-614
    • Lunetta, K.L.1    Faraone, S.V.2    Biederman, J.3    Laird, N.M.4
  • 24
    • 42349112088 scopus 로고    scopus 로고
    • Genome-wide association studies for complex traits: Consensus, uncertainty and challenges
    • McCarthy MI, Abecasis GR, Cardon LR, Goldstein DB, Little J, et al. (2008) Genome-wide association studies for complex traits: consensus, uncertainty and challenges. Nat Rev Genet 9: 356-69.
    • (2008) Nat Rev Genet , vol.9 , pp. 356-369
    • McCarthy, M.I.1    Abecasis, G.R.2    Cardon, L.R.3    Goldstein, D.B.4    Little, J.5
  • 27
    • 0035741831 scopus 로고    scopus 로고
    • Multipoint estimation of identity-by-descent probabilities at arbitrary positions among marker loci on general pedigrees
    • Sobel E, Sengul H, Weeks DE (2001) Multipoint estimation of identity-by-descent probabilities at arbitrary positions among marker loci on general pedigrees. Human Heredity 52: 121-131.
    • (2001) Human Heredity , vol.52 , pp. 121-131
    • Sobel, E.1    Sengul, H.2    Weeks, D.E.3
  • 28
    • 0036157589 scopus 로고    scopus 로고
    • Detection and integration of genotyping errors in statistical genetics
    • Sobel E, Papp JC, Lange K (2002) Detection and integration of genotyping errors in statistical genetics. Am J Hum Genet 70: 496-508.
    • (2002) Am J Hum Genet , vol.70 , pp. 496-508
    • Sobel, E.1    Papp, J.C.2    Lange, K.3
  • 29
    • 13444269543 scopus 로고    scopus 로고
    • Haploview: Analysis and visualization of LD and haplotype maps
    • Barrett JC, Fry B, Maller J, Daly MJ (2005) Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21: 263-265.
    • (2005) Bioinformatics , vol.21 , pp. 263-265
    • Barrett, J.C.1    Fry, B.2    Maller, J.3    Daly, M.J.4
  • 30
    • 17944378309 scopus 로고    scopus 로고
    • Mutations in the gene encoding epsilon-sarcoglycan cause myoclonus-dystonia syndrome
    • Zimprich A, Grabowski M, Asmus F, Naumann M, Berg D, et al. (2001) Mutations in the gene encoding epsilon-sarcoglycan cause myoclonus-dystonia syndrome. Nat Genet 29: 66-9.
    • (2001) Nat Genet , vol.29 , pp. 66-69
    • Zimprich, A.1    Grabowski, M.2    Asmus, F.3    Naumann, M.4    Berg, D.5
  • 32
  • 33
    • 4744347870 scopus 로고    scopus 로고
    • Estimation of genotype error rate using samples with pedigree information-an application on the GeneChip Mapping 10K array
    • Hao K, Li C, Rosenow C, Hung Wong W (2004) Estimation of genotype error rate using samples with pedigree information-an application on the GeneChip Mapping 10K array. Genomics 84: 623-30.
    • (2004) Genomics , vol.84 , pp. 623-630
    • Hao, K.1    Li, C.2    Rosenow, C.3    Hung Wong, W.4
  • 35
    • 0032992242 scopus 로고    scopus 로고
    • True pedigree errors more frequent than apparent errors for single nucleotide polymorphisms
    • Gordon D, Heath SC, Ott J (1999) True pedigree errors more frequent than apparent errors for single nucleotide polymorphisms. Hum Hered 49: 65-70.
    • (1999) Hum Hered , vol.49 , pp. 65-70
    • Gordon, D.1    Heath, S.C.2    Ott, J.3
  • 36
    • 0036920317 scopus 로고    scopus 로고
    • Detection rates for genotyping errors in SNPs using the trio design
    • Geller F, Ziegler A (2002) Detection rates for genotyping errors in SNPs using the trio design. Hum Hered 54: 111-117.
    • (2002) Hum Hered , vol.54 , pp. 111-117
    • Geller, F.1    Ziegler, A.2
  • 38
    • 0026563916 scopus 로고
    • Systematic detection of errors in genetic linkage data
    • Lincoln SE, Lander ES (1992) Systematic detection of errors in genetic linkage data. Genomics 14: 604-610.
    • (1992) Genomics , vol.14 , pp. 604-610
    • Lincoln, S.E.1    Lander, E.S.2
  • 39
    • 0029655834 scopus 로고    scopus 로고
    • Error detection for genetic data, using likelihood methods
    • Ehm MG, Kimmel M, Cottingham RW Jr (1996) Error detection for genetic data, using likelihood methods. Am J Hum Genet 58: 225-234.
    • (1996) Am J Hum Genet , vol.58 , pp. 225-234
    • Ehm, M.G.1    Kimmel, M.2    Cottingham Jr, R.W.3
  • 40
    • 0036801154 scopus 로고    scopus 로고
    • The impact of genotyping error on haplotype reconstruction and frequency estimation
    • Kirk KM, Cardon LR (2002) The impact of genotyping error on haplotype reconstruction and frequency estimation. Eur J Hum Genet 10: 616-22.
    • (2002) Eur J Hum Genet , vol.10 , pp. 616-622
    • Kirk, K.M.1    Cardon, L.R.2
  • 42
    • 28444445926 scopus 로고    scopus 로고
    • R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL
    • R Development Core Team (2005) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL http://www.R-project.org.
    • (2005) R: A language and environment for statistical computing


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.