메뉴 건너뛰기




Volumn 70, Issue 2, 2010, Pages 102-108

A Cost-effective statistical method to correct for differential genotype misclassification when performing case-control genetic association

Author keywords

Differential genotype misclassification; Genotyping errors; Method; Power; Simulation

Indexed keywords

ARTICLE; COST EFFECTIVENESS ANALYSIS; DOMINANT INHERITANCE; GENE FREQUENCY; GENETIC ASSOCIATION; GENETIC MODEL; GENOTYPE; MULTIFACTORIAL INHERITANCE; POPULATION DYNAMICS; RECESSIVE INHERITANCE; STATISTICAL ANALYSIS; BIOLOGICAL MODEL; CASE CONTROL STUDY; COMPUTER SIMULATION; COST BENEFIT ANALYSIS; ECONOMICS; HUMAN; PROCEDURES; STATISTICAL MODEL;

EID: 77954182774     PISSN: 00015652     EISSN: 14230062     Source Type: Journal    
DOI: 10.1159/000314470     Document Type: Article
Times cited : (4)

References (31)
  • 1
    • 19944421744 scopus 로고    scopus 로고
    • Qua n-tifying the percent increase in minimum sample size for SNP genotyping errors in genetic model-based association studies
    • Kang S, Finch S, Haynes C, Gordon D: Qua n-tifying the percent increase in minimum sample size for SNP genotyping errors in genetic model-based association studies. Hum Hered 2004; 58: 139-144.
    • (2004) Hum Hered , vol.58 , pp. 139-144
    • Kang, S.1    Finch, S.2    Haynes, C.3    Gordon, D.4
  • 2
    • 0942276432 scopus 로고    scopus 로고
    • What SNP geno-typing errors are most costly for genetic association studies?
    • Kang S, Gordon D, Finch S: What SNP geno-typing errors are most costly for genetic association studies? Genet Epidemiol 20 04; 26: 132-141.
    • (2004) Genet Epidemiol , vol.26 , pp. 132-141
    • Kang, S.1    Gordon, D.2    Finch, S.3
  • 3
    • 0039245568 scopus 로고
    • Aninvestigation of the effect of misclassification on the properties of chi-2-tests in the analysis of categorical data
    • Mote V, Anderson R: Aninvestigation of the effect of misclassification on the properties of chi-2-tests in the analysis of categorical data. Biometrika 1965; 52:95-109.
    • (1965) Biometrika , vol.52 , pp. 95-109
    • Mote, V.1    Anderson, R.2
  • 4
    • 1842859051 scopus 로고    scopus 로고
    • Power and sample size calculations for case-control genetic association tests when errors are present: Application to single nucleotide polymorphisms
    • Gordon D, Finch S, Nothnagel M, Ott J: Power and sample size calculations for case-control genetic association tests when errors are present: application to single nucleotide polymorphisms. Hum Hered 2002; 54:22-33.
    • (2002) Hum Hered , vol.54 , pp. 22-33
    • Gordon, D.1    Finch, S.2    Nothnagel, M.3    Ott, J.4
  • 5
    • 0035235036 scopus 로고    scopus 로고
    • Assessment and management of single nucleotide polymorphism genotype errors in genetic association analysis
    • Gordon D, Ott J: Assessment and management of single nucleotide polymorphism genotype errors in genetic association analysis. Pac Symp Biocomput 2001: 18-29.
    • (2001) Pac Symp Biocomput , pp. 18-29
    • Gordon, D.1    Ott, J.2
  • 6
    • 34047274759 scopus 로고    scopus 로고
    • The effects of SNP genotyping errors on the power of the Cochran-Armit-age linear trend test for case/control association studies
    • Ahn K, Haynes C, Kim W, Fleur R, Gordon D, Finch S: The effects of SNP genotyping errors on the power of the Cochran-Armit-age linear trend test for case/control association studies. Ann Hum Genet 2007; 71: 249-261.
    • (2007) Ann Hum Genet , vol.71 , pp. 249-261
    • Ahn, K.1    Haynes, C.2    Kim, W.3    Fleur, R.4    Gordon, D.5    Finch, S.6
  • 7
    • 30344454257 scopus 로고    scopus 로고
    • Characteristics of replicated single-nucleotide polymorphism genotypes from Coga: Affymetrix and Center for Inherited Disease Research
    • Tintle N, Ahn K, Mendell N, Gordon D, Finch S: Characteristics of replicated single-nucleotide polymorphism genotypes from Coga: Affymetrix and Center for Inherited Disease Research. BMC Genet 2005; 6:S154.
    • (2005) BMC Genet , vol.6
    • Tintle, N.1    Ahn, K.2    Mendell, N.3    Gordon, D.4    Finch, S.5
  • 8
    • 65449170784 scopus 로고    scopus 로고
    • The cost effectiveness of duplicate geno-typing for testing genetic association
    • Tintle N, Gordon D, Van Bruggen D, Finch S: The cost effectiveness of duplicate geno-typing for testing genetic association. Ann Hum Genet 2009; 73: 370-378.
    • (2009) Ann Hum Genet , vol.73 , pp. 370-378
    • Tintle, N.1    Gordon, D.2    Van Bruggen, D.3    Finch, S.4
  • 10
    • 67650954439 scopus 로고    scopus 로고
    • Incorporating duplicate genotype data into linear trend tests of genetic association: Methods and cost-effectiveness
    • Borchers B, Brown M, McLellan B, Bek-metjev A, Tintle N: Incorporating duplicate genotype data into linear trend tests of genetic association: methods and cost-effectiveness. Stat Appl Genet Mol Biol 2009; 8:Article 24.
    • (2009) Stat Appl Genet Mol Biol , vol.8 , pp. 24
    • Borchers, B.1    Brown, M.2    McLellan, B.3    Bek-Metjev, A.4    Tintle, N.5
  • 11
    • 33846897439 scopus 로고    scopus 로고
    • Using duplicate genotyped data in genetic analyses: Testing association and estimating error rates
    • Tintle N, Gordon D, McMahon F, Finch S: Using duplicate genotyped data in genetic analyses: Testing association and estimating error rates. Stat Appl Genet Mol Biol 2007; 6:Article 4.
    • (2007) Stat Appl Genet Mol Biol , vol.6 , pp. 4
    • Tintle, N.1    Gordon, D.2    McMahon, F.3    Finch, S.4
  • 12
    • 34249693630 scopus 로고    scopus 로고
    • A method to address differential bias in geno-typing in large-scale association studies
    • Plagnol V, Cooper J, Todd J, Clayton D: A method to address differential bias in geno-typing in large-scale association studies. PLoS Genet 2007; 3:e74.
    • (2007) PLoS Genet , vol.3
    • Plagnol, V.1    Cooper, J.2    Todd, J.3    Clayton, D.4
  • 14
    • 33744481021 scopus 로고    scopus 로고
    • Effects of differential ge-notyping error rate on the type i error probability of case-control studies
    • Moskvina V, Craddock N, Holmans P, Owen M, O'Donovan M: Effects of differential ge-notyping error rate on the type I error probability of case-control studies. Hum Hered 2006; 61:55-64.
    • (2006) Hum Hered , vol.61 , pp. 55-64
    • Moskvina, V.1    Craddock, N.2    Holmans, P.3    Owen, M.4    O'Donovan, M.5
  • 16
    • 61849168179 scopus 로고    scopus 로고
    • Impact of genotyping errors on the type i error rate and the power of haplotype-based association methods
    • Marquard V, Beckmann L, Heid I, Lamina C, Chang-Claude J: Impact of genotyping errors on the type I error rate and the power of haplotype-based association methods. BMC Genet 2009; 10:3.
    • (2009) BMC Genet , vol.10 , pp. 3
    • Marquard, V.1    Beckmann, L.2    Heid, I.3    Lamina, C.4    Chang-Claude, J.5
  • 17
    • 57449095032 scopus 로고    scopus 로고
    • The effects of misclassifica-tion in studies of gene-environment interactions
    • Cheng K, Lin W: The effects of misclassifica-tion in studies of gene-environment interactions. Hum Hered 2009; 67:77-87.
    • (2009) Hum Hered , vol.67 , pp. 77-87
    • Cheng, K.1    Lin, W.2
  • 18
    • 67650964051 scopus 로고    scopus 로고
    • Increase of rejection rate in case-control studies with the differential genotyping error rates
    • Ahn K, Gordon D, Finch S: Increase of rejection rate in case-control studies with the differential genotyping error rates. Stat Appl Genet Mol Biol 2009; 8:Article 25.
    • (2009) Stat Appl Genet Mol Biol , vol.8 , pp. 25
    • Ahn, K.1    Gordon, D.2    Finch, S.3
  • 19
    • 0033581453 scopus 로고    scopus 로고
    • Association of mis-sense substitution in SRD5A2 gene with prostate cancer in African-American and hispanic men in Los Angeles, USA
    • Makridakis N, Ross R, Pike M, Crocitto L, Kolonel L, Pearce C, Henderson B, Reichardt J: Association of mis-sense substitution in SRD5A2 gene with prostate cancer in African-American and hispanic men in Los Angeles, USA. Lancet 1999; 354: 975-978.
    • (1999) Lancet , vol.354 , pp. 975-978
    • Makridakis, N.1    Ross, R.2    Pike, M.3    Crocitto, L.4    Kolonel, L.5    Pearce, C.6    Henderson, B.7    Reichardt, J.8
  • 21
    • 55849140187 scopus 로고    scopus 로고
    • Computing power and sample size for case-control association studies with copy number polymorphism: Application of mixture-based likelihood ratio test
    • Kim W, Gordon D, Sebat J, Ye K, Finch S: Computing power and sample size for case-control association studies with copy number polymorphism: application of mixture-based likelihood ratio test. PLoS ONE 2008; 3:e3475.
    • (2008) PLoS ONE , vol.3
    • Kim, W.1    Gordon, D.2    Sebat, J.3    Ye, K.4    Finch, S.5
  • 22
    • 18544362940 scopus 로고    scopus 로고
    • Increasing power for tests of genetic association in the presence of phenotype and/or genotype error by use of double-sampling
    • Gordon D, Yang Y, Haynes C, Finch S, Men-dell N, Brown A, Haroutunian V: Increasing power for tests of genetic association in the presence of phenotype and/or genotype error by use of double-sampling. Stat Appl Genet Mol Biol 2004; 3:Article 26.
    • (2004) Stat Appl Genet Mol Biol , vol.3 , pp. 26
    • Gordon, D.1    Yang, Y.2    Haynes, C.3    Finch, S.4    Men-Dell, N.5    Brown, A.6    Haroutunian, V.7
  • 23
    • 84950649045 scopus 로고
    • A double sampling scheme for estimating from binomial data with misclas-sifications
    • Tenenbein A: A double sampling scheme for estimating from binomial data with misclas-sifications. J Am Stat Assoc 1970; 65:1350-1361.
    • (1970) J Am Stat Assoc , vol.65 , pp. 1350-1361
    • Tenenbein, A.1
  • 24
    • 0015300666 scopus 로고
    • A double sampling scheme for estimating from misclassified multinomial data with applications to sampling inspection
    • Tenenbein A: A double sampling scheme for estimating from misclassified multinomial data with applications to sampling inspection. Technometrics 1972; 14: 187-202.
    • (1972) Technometrics , vol.14 , pp. 187-202
    • Tenenbein, A.1
  • 25
    • 0002629270 scopus 로고
    • Maximum likelihood from incomplete data via the em algorithm
    • Dempster A, Laird N, Rubin D: Maximum likelihood from incomplete data via the EM algorithm. J R Stat Soc B Met 1977; 39:1-38.
    • (1977) J R Stat Soc B Met , vol.39 , pp. 1-38
    • Dempster, A.1    Laird, N.2    Rubin, D.3
  • 26
    • 0036154960 scopus 로고    scopus 로고
    • Probability of detection of genotyping errors and mutations as inheritance inconsistencies in nuclear-family data
    • Douglas J, Skol A, Boehnke M: Probability of detection of genotyping errors and mutations as inheritance inconsistencies in nuclear-family data. Am J Hum Genet 2002; 70: 487-495.
    • (2002) Am J Hum Genet , vol.70 , pp. 487-495
    • Douglas, J.1    Skol, A.2    Boehnke, M.3
  • 28
    • 25444509248 scopus 로고    scopus 로고
    • Power and sample size calculations in the presence of phenotype errors for case/control genetic association studies
    • Edwards BJ, Haynes C, Levenstien MA, Finch SJ, Gordon D: Power and sample size calculations in the presence of phenotype errors for case/control genetic association studies. BMC Genet 20 05; 6: 18.
    • (2005) BMC Genet , vol.6 , pp. 18
    • Edwards, B.J.1    Haynes, C.2    Levenstien, M.A.3    Finch, S.J.4    Gordon, D.5
  • 30
    • 17144411157 scopus 로고    scopus 로고
    • Assessment of two flexible and compatible SNP genotyping platforms: Taqman SNP Genotyping Assays and the SNPlex Geno-typing System
    • Dela Vega F, Lazaruk K, Rhodes M, Wenz M: Assessment of two flexible and compatible SNP genotyping platforms: Taqman SNP Genotyping Assays and the SNPlex Geno-typing System. Mutat Res 2005; 573:111-135.
    • (2005) Mutat Res , vol.573 , pp. 111-135
    • Dela Vega, F.1    Lazaruk, K.2    Rhodes, M.3    Wenz, M.4
  • 31
    • 38049087506 scopus 로고    scopus 로고
    • Linear trend tests for case-control genetic association that incorporate random phenotype and genotype misclassification error
    • Gordon D, Haynes C, Yang Y, Kramer P, Finch S: Linear trend tests for case-control genetic association that incorporate random phenotype and genotype misclassification error. Genet Epidemiol 2007; 31:853-870.
    • (2007) Genet Epidemiol , vol.31 , pp. 853-870
    • Gordon, D.1    Haynes, C.2    Yang, Y.3    Kramer, P.4    Finch, S.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.