메뉴 건너뛰기




Volumn 5, Issue JAN, 2014, Pages

Corrigendum to Exploring the potential benefits of stratified false discovery rates for region-based testing of association with rare genetic variation [Front. Genet., 5, (2014) 11] DOI: 10.3389/fgene.2014.00011;Exploring the potential benefits of stratified false discovery rates for region-based testing of association with rare genetic variation

Author keywords

False discovery rate; Genomic annotation; Multiple testing; Rare genetic variants; SNV; Stratified false discovery rate; Whole genome sequencing; Window based tests; Acknowledgments; False discovery rates; Rare genetic variation; Region based tests; UK10k

Indexed keywords

ARTICLE; CHROMOSOME 3; COMPUTER ANALYSIS; DATA PROCESSING; GENE LINKAGE DISEQUILIBRIUM; GENE SEQUENCE; GENETIC ASSOCIATION; GENETIC TRAIT; GENETIC VARIABILITY; KERNEL METHOD; MOLECULAR GENETICS; NONPARAMETRIC TEST; NULL HYPOTHESIS; PHENOTYPIC VARIATION; SIMULATION; STATISTICAL DISTRIBUTION; WINDOW BASED ASSOCIATION TEST;

EID: 84893669233     PISSN: None     EISSN: 16648021     Source Type: Journal    
DOI: 10.3389/fgene.2014.00061     Document Type: Erratum
Times cited : (6)

References (29)
  • 1
    • 84975795680 scopus 로고    scopus 로고
    • An integrated map of genetic variation from 1,092 human genomes
    • doi: 10.1038/nature11632
    • Abecasis, G. R., Auton, A., Brooks, L. D., Depristo, M. A., Durbin, R. M., Handsaker, R. E., et al. (2012). An integrated map of genetic variation from 1,092 human genomes. Nature 491, 56-65. doi: 10.1038/nature11632
    • (2012) Nature , vol.491 , pp. 56-65
    • Abecasis, G.R.1    Auton, A.2    Brooks, L.D.3    Depristo, M.A.4    Durbin, R.M.5    Handsaker, R.E.6
  • 2
    • 77951640946 scopus 로고    scopus 로고
    • A method and server for predicting damaging missense mutations
    • doi: 10.1038/nmeth0410-248
    • Adzhubei, I. A., Schmidt, S., Peshkin, L., Ramensky, V. E., Gerasimova, A., Bork, P., et al. (2010). A method and server for predicting damaging missense mutations. Nat. Methods 7, 248-249. doi: 10.1038/nmeth0410-248
    • (2010) Nat. Methods , vol.7 , pp. 248-249
    • Adzhubei, I.A.1    Schmidt, S.2    Peshkin, L.3    Ramensky, V.E.4    Gerasimova, A.5    Bork, P.6
  • 3
    • 77958088279 scopus 로고    scopus 로고
    • Rare variant association analysis methods for complex traits
    • doi: 10.1146/annurev-genet-102209-163421 Genet
    • Asimit, J., and Zeggini, E. (2010). Rare variant association analysis methods for complex traits. Annu. Rev. Genet. 44, 293-308. doi: 10.1146/annurev-genet-102209-163421
    • (2010) Annu. Rev. , vol.44 , pp. 293-308
    • Asimit, J.1    Zeggini, E.2
  • 4
    • 79959992192 scopus 로고    scopus 로고
    • An application and empirical comparison of statistical analysis methods for associating rare variants to a complex phenotype
    • eds R. B. Altman, A. K. Dunker, L. Hunter, T. Murray, and T. E. Klein (Kohala Coast, HI: World Scientific Publishing Co. Pte. Ltd., Singapore), doi:10.1142/9789814335058_0009
    • Bansal, V., Libiger, O., Torkamani, A., and Schork, N. J. (2011). "An application and empirical comparison of statistical analysis methods for associating rare variants to a complex phenotype", in Pacific Symposium on Biocomputing 2011, eds R. B. Altman, A. K. Dunker, L. Hunter, T. Murray, and T. E. Klein (Kohala Coast, HI: World Scientific Publishing Co. Pte. Ltd., Singapore), 76-87. doi: 10.1142/9789814335058_0009
    • (2011) Pacific Symposium on Biocomputing 2011 , pp. 76-87
    • Bansal, V.1    Libiger, O.2    Torkamani, A.3    Schork, N.J.4
  • 5
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: a practical and powerful approach to multiple testing
    • Benjamini, Y., and Hochberg, Y. (1995). Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Statist. Soc. B 57, 289-300.
    • (1995) J. R. Statist. Soc. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 6
    • 0035733108 scopus 로고    scopus 로고
    • The control of the false discovery rate in multiple testing under dependency
    • doi: 10.1214/aos/1013699998
    • Benjamini, Y., and Yekutieli, D. (2001). The control of the false discovery rate in multiple testing under dependency. Ann. Statist. 29, 1165-1188. doi: 10.1214/aos/1013699998
    • (2001) Ann. Statist. , vol.29 , pp. 1165-1188
    • Benjamini, Y.1    Yekutieli, D.2
  • 7
    • 84876160110 scopus 로고    scopus 로고
    • Localization of association signal from risk and protective variants in sequencing studies
    • doi: 10.3389/fgene.2012.00173
    • Brisbin, A., Jenkins, G. D., Ellsworth, K. A., Wang, L., and Fridley, B. L. (2012). Localization of association signal from risk and protective variants in sequencing studies. Front. Genet. 3:173. doi: 10.3389/fgene.2012.00173
    • (2012) Front. Genet. , vol.3 , pp. 173
    • Brisbin, A.1    Jenkins, G.D.2    Ellsworth, K.A.3    Wang, L.4    Fridley, B.L.5
  • 8
    • 84859588748 scopus 로고    scopus 로고
    • Detecting rare variant associations by identity-by-descent mapping in case-control studies
    • doi: 10.1534/genetics.111.136937
    • Browning, S. R., and Thompson, E. A. (2012). Detecting rare variant associations by identity-by-descent mapping in case-control studies. Genetics 190, 1521-1531. doi: 10.1534/genetics.111.136937
    • (2012) Genetics , vol.190 , pp. 1521-1531
    • Browning, S.R.1    Thompson, E.A.2
  • 9
    • 84883600075 scopus 로고    scopus 로고
    • A sequence of methodological changes due to sequencing
    • doi: 10.1097/ACI.0b013e3283648f68
    • Burkett, K. M., and Greenwood, C. M. T. (2013). A sequence of methodological changes due to sequencing. Curr. Opin. Allergy Clin. Immunol. 13, 470-477. doi: 10.1097/ACI.0b013e3283648f68
    • (2013) Curr. Opin. Allergy Clin. Immunol. , vol.13 , pp. 470-477
    • Burkett, K.M.1    Greenwood, C.M.T.2
  • 10
    • 42249087793 scopus 로고    scopus 로고
    • Estimation of significance thresholds for genomewide association scans
    • doi: 10.1002/gepi.20297
    • Dudbridge, F., and Gusnanto, A. (2008). Estimation of significance thresholds for genomewide association scans. Genet. Epidemiol. 32, 227-234. doi: 10.1002/gepi.20297
    • (2008) Genet. Epidemiol. , vol.32 , pp. 227-234
    • Dudbridge, F.1    Gusnanto, A.2
  • 11
    • 33947216221 scopus 로고    scopus 로고
    • Correlation and large-scale simultaneous significance testing
    • doi: 10.1198/016214506000001211
    • Efron, B. (2007). Correlation and large-scale simultaneous significance testing. J. Am. Statist. Assoc. 102, 93-103. doi: 10.1198/016214506000001211
    • (2007) J. Am. Statist. Assoc. , vol.102 , pp. 93-103
    • Efron, B.1
  • 12
    • 0030335219 scopus 로고    scopus 로고
    • Using specially designed exponential families for density estimation
    • Efron, B., and Tibshirani, R. (1998). Using specially designed exponential families for density estimation. Ann. Statist. 24, 2431-2461.
    • (1998) Ann. Statist. , vol.24 , pp. 2431-2461
    • Efron, B.1    Tibshirani, R.2
  • 13
    • 34447306875 scopus 로고    scopus 로고
    • Optimal selection of markers for validation or replication from genome-wide association studies
    • doi: 10.1002/gepi.20220
    • Greenwood, C. M., Rangrej, J., and Sun, L. (2007). Optimal selection of markers for validation or replication from genome-wide association studies. Genet. Epidemiol. 31, 396-407. doi: 10.1002/gepi.20220
    • (2007) Genet. Epidemiol. , vol.31 , pp. 396-407
    • Greenwood, C.M.1    Rangrej, J.2    Sun, L.3
  • 14
    • 84882451031 scopus 로고    scopus 로고
    • Empirical power of very rare variants for common traits and disease: results from sanger sequencing 1998 individuals
    • doi: 10.1038/ejhg.2012.284
    • Ladouceur, M., Zheng, H. F., Greenwood, C. M., and Richards, J. B. (2013). Empirical power of very rare variants for common traits and disease: results from sanger sequencing 1998 individuals. Eur. J. Hum. Genet. 21, 1027-1030. doi: 10.1038/ejhg.2012.284
    • (2013) Eur. J. Hum. Genet. , vol.21 , pp. 1027-1030
    • Ladouceur, M.1    Zheng, H.F.2    Greenwood, C.M.3    Richards, J.B.4
  • 15
    • 84864942403 scopus 로고    scopus 로고
    • Optimal unified approach for rare-variant association testing with application to small-sample case-control whole-exome sequencing studies
    • doi: 10.1016/j.ajhg.2012.06.007
    • Lee, S., Emond, M. J., Bamshad, M. J., Barnes, K. C., Rieder, M. J., Nickerson, D. A., et al. (2012). Optimal unified approach for rare-variant association testing with application to small-sample case-control whole-exome sequencing studies. Am. J. Hum. Genet. 91, 224-237. doi: 10.1016/j.ajhg.2012.06.007
    • (2012) Am. J. Hum. Genet. , vol.91 , pp. 224-237
    • Lee, S.1    Emond, M.J.2    Bamshad, M.J.3    Barnes, K.C.4    Rieder, M.J.5    Nickerson, D.A.6
  • 16
    • 30744434862 scopus 로고    scopus 로고
    • Adjusting multiple testing in multilocus analyses using the eigenvalues of a correlation matrix
    • doi: 10.1038/sj.hdy.6800717
    • Li, J., and Ji, L. (2005). Adjusting multiple testing in multilocus analyses using the eigenvalues of a correlation matrix. Heredity 95, 221-227. doi: 10.1038/sj.hdy.6800717
    • (2005) Heredity , vol.95 , pp. 221-227
    • Li, J.1    Ji, L.2
  • 17
    • 84855896680 scopus 로고    scopus 로고
    • A combined functional annotation score for non-synonymous variants
    • doi: 10.1159/000334984
    • Lopes, M. C., Joyce, C., Ritchie, G. R., John, S. L., Cunningham, F., Asimit, J., et al. (2012). A combined functional annotation score for non-synonymous variants. Hum. Hered. 73, 47-51. doi: 10.1159/000334984
    • (2012) Hum. Hered. , vol.73 , pp. 47-51
    • Lopes, M.C.1    Joyce, C.2    Ritchie, G.R.3    John, S.L.4    Cunningham, F.5    Asimit, J.6
  • 18
    • 84867444899 scopus 로고    scopus 로고
    • ENCODE: the human encyclopaedia
    • doi: 10.1038/489046a
    • Maher, B. (2012). ENCODE: the human encyclopaedia. Nature 489, 46-48. doi: 10.1038/489046a
    • (2012) Nature , vol.489 , pp. 46-48
    • Maher, B.1
  • 19
    • 0036119504 scopus 로고    scopus 로고
    • Accounting for human polymorphisms predicted to affect protein function
    • doi: 10.1101/gr.212802
    • Ng, P. C., and Henikoff, S. (2002). Accounting for human polymorphisms predicted to affect protein function. Genome Res. 12, 436-446. doi: 10.1101/gr.212802
    • (2002) Genome Res , vol.12 , pp. 436-446
    • Ng, P.C.1    Henikoff, S.2
  • 20
    • 43249125992 scopus 로고    scopus 로고
    • Estimation of the multiple testing burden for genomewide association studies of nearly all common variants
    • doi: 10.1002/gepi.20303
    • Pe'er, I., Yelensky, R., Altshuler, D., and Daly, M. J. (2008). Estimation of the multiple testing burden for genomewide association studies of nearly all common variants. Genet. Epidemiol. 32, 381-385. doi: 10.1002/gepi.20303
    • (2008) Genet. Epidemiol. , vol.32 , pp. 381-385
    • Pe'er, I.1    Yelensky, R.2    Altshuler, D.3    Daly, M.J.4
  • 21
    • 0038156106 scopus 로고    scopus 로고
    • Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values
    • doi: 10.1093/bioinformatics/btg148
    • Pounds, S., and Morris, S. W. (2003). Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values. Bioinformatics 19, 1236-1242. doi: 10.1093/bioinformatics/btg148
    • (2003) Bioinformatics , vol.19 , pp. 1236-1242
    • Pounds, S.1    Morris, S.W.2
  • 22
    • 77953121877 scopus 로고    scopus 로고
    • Pooled association tests for rare variants in exon-resequencing studies
    • doi: 10.1016/j.ajhg.2010.04.005
    • Price, A. L., Kryukov, G. V., De Bakker, P. I., Purcell, S. M., Staples, J., Wei, L. J., et al. (2010). Pooled association tests for rare variants in exon-resequencing studies. Am. J. Hum. Genet. 86, 832-838. doi: 10.1016/j.ajhg.2010.04.005
    • (2010) Am. J. Hum. Genet. , vol.86 , pp. 832-838
    • Price, A.L.1    Kryukov, G.V.2    De Bakker, P.I.3    Purcell, S.M.4    Staples, J.5    Wei, L.J.6
  • 23
    • 0029741063 scopus 로고    scopus 로고
    • The future of genetic studies of complex human diseases
    • doi: 10.1126/science.273.5281.1516
    • Risch, N., and Merikangas, K. (1996). The future of genetic studies of complex human diseases. Science 273, 1516-1517. doi: 10.1126/science.273.5281.1516
    • (1996) Science , vol.273 , pp. 1516-1517
    • Risch, N.1    Merikangas, K.2
  • 24
    • 79952159600 scopus 로고    scopus 로고
    • The effect of correlation in false discovery rate estimation
    • doi: 10.1093/biomet/asq075
    • Schwartzman, A., and Lin, X. (2011). The effect of correlation in false discovery rate estimation. Biometrika 98, 199-214. doi: 10.1093/biomet/asq075
    • (2011) Biometrika , vol.98 , pp. 199-214
    • Schwartzman, A.1    Lin, X.2
  • 25
    • 45449097447 scopus 로고    scopus 로고
    • fdrtool: a versatile R package for estimating local and tail area-based false discovery rates
    • doi: 10.1093/bioinformatics/btn209
    • Strimmer, K. (2008). fdrtool: a versatile R package for estimating local and tail area-based false discovery rates. Bioinformatics 24, 1461-1462. doi: 10.1093/bioinformatics/btn209
    • (2008) Bioinformatics , vol.24 , pp. 1461-1462
    • Strimmer, K.1
  • 26
    • 33747595466 scopus 로고    scopus 로고
    • Stratified false discovery control for large-scale hypothesis testing with application to genome-wide association studies
    • doi: 10.1002/gepi.20164
    • Sun, L., Craiu, R. V., Paterson, A. D., and Bull, S. B. (2006). Stratified false discovery control for large-scale hypothesis testing with application to genome-wide association studies. Genet. Epidemiol. 30, 519-530. doi: 10.1002/gepi.20164
    • (2006) Genet. Epidemiol. , vol.30 , pp. 519-530
    • Sun, L.1    Craiu, R.V.2    Paterson, A.D.3    Bull, S.B.4
  • 27
    • 80051499915 scopus 로고    scopus 로고
    • Rare-variant association testing for sequencing data with the sequence kernel association test
    • doi: 10.1016/j.ajhg.2011.05.029
    • Wu, M. C., Lee, S., Cai, T., Li, Y., Boehnke, M., and Lin, X. (2011). Rare-variant association testing for sequencing data with the sequence kernel association test. Am. J. Hum. Genet. 89, 82-93. doi: 10.1016/j.ajhg.2011.05.029
    • (2011) Am. J. Hum. Genet. , vol.89 , pp. 82-93
    • Wu, M.C.1    Lee, S.2    Cai, T.3    Li, Y.4    Boehnke, M.5    Lin, X.6
  • 29
    • 77954140531 scopus 로고    scopus 로고
    • Common SNPs explain a large proportion of the heritability for human height
    • doi: 10.1038/ng.608
    • Yang, J., Benyamin, B., Mcevoy, B. P., Gordon, S., Henders, A. K., Nyholt, D. R., et al. (2010). Common SNPs explain a large proportion of the heritability for human height. Nat. Genet. 42, 565-569. doi: 10.1038/ng.608
    • (2010) Nat. Genet. , vol.42 , pp. 565-569
    • Yang, J.1    Benyamin, B.2    Mcevoy, B.P.3    Gordon, S.4    Henders, A.K.5    Nyholt, D.R.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.