메뉴 건너뛰기




Volumn 8, Issue 11, 2013, Pages 1141-1152

Considerations for normalization of DNA methylation data by Illumina 450K BeadChip assay in population studies

Author keywords

ASMN; Bias correction; DNA methylome; Epigenetics; Microarray; Pipeline; Technical variability

Indexed keywords

ALGORITHM; ANALYTICAL ERROR; ARTICLE; CHILD; CONTROLLED STUDY; CPG ISLAND; DATA ANALYSIS SOFTWARE; DNA METHYLATION; DNA MICROARRAY; HUMAN; MEASUREMENT REPEATABILITY; POPULATION RESEARCH; QUALITY CONTROL; SIGNAL NOISE RATIO;

EID: 84887485993     PISSN: 15592294     EISSN: 15592308     Source Type: Journal    
DOI: 10.4161/epi.26037     Document Type: Article
Times cited : (53)

References (18)
  • 2
    • 0035839108 scopus 로고    scopus 로고
    • Behind the scenes of gene expression
    • PM I D: 114 9 8570
    • Pennisi E. Behind the scenes of gene expression. Science 2001; 293:1064-1067; PM I D: 114 9 8570; http://dx.doi.org/10.1126/science.293.5532.1064
    • (2001) Science , vol.293 , pp. 1064-1067
    • Pennisi, E.1
  • 3
    • 34247136384 scopus 로고    scopus 로고
    • Techniques used in studies of epigenome dysregulation due to aberrant DNA methylation: An emphasis on fetal-based adult diseases
    • PM I D:173170 9 7
    • Ho SM, Tang W Y. Techniques used in studies of epigenome dysregulation due to aberrant DNA methylation: an emphasis on fetal-based adult diseases. Reprod Toxi c o l 2007; 23:267-282; PM I D:173170 9 7; http://dx.doi.org/10.1016/j.reprotox.2007.01.004
    • (2007) Reprod Toxicol , vol.23 , pp. 267-282
    • Ho, S.M.1    Tang, W.Y.2
  • 4
    • 84878107240 scopus 로고    scopus 로고
    • Epigenetics: The link between nature and nurture
    • PMID:22906839
    • Tammen SA, Friso S, Choi SW. Epigenetics: the link between nature and nurture. Mol Aspects Med 2012; 34: 753-764; PMID:22906839
    • (2012) Mol Aspects Med , vol.34 , pp. 753-764
    • Tammen, S.A.1    Friso, S.2    Choi, S.W.3
  • 5
    • 77249137168 scopus 로고    scopus 로고
    • Principles and challenges of genomewide DNA methylation analysis
    • PMID:20125086
    • Laird PW. Principles and challenges of genomewide DNA methylation analysis. Nat Rev Genet 2010; 11:191-203; PMID:20125086; http://dx.doi.org/10.1038/nrg2732
    • (2010) Nat Rev Genet , vol.11 , pp. 191-203
    • Laird, P.W.1
  • 7
    • 84862157386 scopus 로고    scopus 로고
    • Quantitative cross-validation and content analysis of the 450k DNA methylation array from Illumina, Inc
    • PMID:22546179
    • Roessler J, Ammerpohl O, Gutwein J, Hasemeier B, Anwar SL, Kreipe HH, Lehmann U. Quantitative cross-validation and content analysis of the 450k DNA methylation array from Illumina, Inc. BMC Res Notes 2012; 5:210; PMID:22546179; http://dx.doi.org/10.1186/1756-0500-5-210
    • (2012) BMC Res Notes , vol.5 , pp. 210
    • Roessler, J.1    Ammerpohl, O.2    Gutwein, J.3    Hasemeier, B.4    Anwar, S.L.5    Kreipe, H.H.6    Lehmann, U.7
  • 8
    • 46249088370 scopus 로고    scopus 로고
    • A pipeline for processing Illumina microarray
    • PMID:18467348
    • Du P, Kibbe WA, Lin SM. lumi: a pipeline for processing Illumina microarray. Bioinformatics 2008; 24:1547-1548; PMID:18467348; http://dx.doi.org/10.1093/bioinformatics/btn224
    • (2008) Bioinformatics , vol.24 , pp. 1547-1548
    • Du, P.1    Kibbe, W.A.2    Lin, S.M.3
  • 9
    • 84862266444 scopus 로고    scopus 로고
    • Complete pipeline for Infinium(®) Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation
    • PMID:22690668
    • Touleimat N, Tost J. Complete pipeline for Infinium(®) Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation. Epigenomics 2012; 4:325-341; PMID:22690668; http://dx.doi.org/10.2217/epi.12.21
    • (2012) Epigenomics , vol.4 , pp. 325-341
    • Touleimat, N.1    Tost, J.2
  • 11
    • 82455206314 scopus 로고    scopus 로고
    • Evaluation of the Infinium Methylation 450K technology
    • PMID:22126295
    • Dedeurwaerder S, Defrance M, Calonne E, Denis H, Sotiriou C, Fuks F. Evaluation of the Infinium Methylation 450K technology. Epigenomics 2011; 3:771-784; PMID:22126295; http://dx.doi.org/10.2217/epi.11.105
    • (2011) Epigenomics , vol.3 , pp. 771-784
    • Dedeurwaerder, S.1    Defrance, M.2    Calonne, E.3    Denis, H.4    Sotiriou, C.5    Fuks, F.6
  • 12
    • 84862173149 scopus 로고    scopus 로고
    • SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips
    • PMID:22703947
    • Maksimovic J, Gordon L, Oshlack A. SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips. Genome Biol 2012; 13:R44; PMID:22703947; http://dx.doi.org/10.1186/gb-2012-13-6-r44
    • (2012) Genome Biol , vol.13
    • Maksimovic, J.1    Gordon, L.2    Oshlack, A.3
  • 13
    • 84872564830 scopus 로고    scopus 로고
    • A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data
    • PMID:23175756
    • Teschendorff AE, Marabita F, Lechner M, Bartlett T, Tegner J, Gomez-Cabrero D, Beck S. A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics 2013; 29:189-196; PMID:23175756; http://dx.doi.org/10.1093/bioinformatics/bts680
    • (2013) Bioinformatics , vol.29 , pp. 189-196
    • Teschendorff, A.E.1    Marabita, F.2    Lechner, M.3    Bartlett, T.4    Tegner, J.5    Gomez-Cabrero, D.6    Beck, S.7
  • 16
    • 79958754527 scopus 로고    scopus 로고
    • Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome
    • PMID:21593595
    • Sandoval J, Heyn H, Moran S, Serra-Musach J, Pujana MA, Bibikova M, Esteller M. Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome. Epigenetics 2 011; 6:692-702; PMID:21593595; http://dx.doi.org/10.4161/epi.6.6.16196
    • (2011) Epigenetics , vol.6 , pp. 692-702
    • Sandoval, J.1    Heyn, H.2    Moran, S.3    Serra-Musach, J.4    Pujana, M.A.5    Bibikova, M.6    Esteller, M.7
  • 17
    • 84887458701 scopus 로고    scopus 로고
    • International HapMap Project
    • International HapMap Project. www.hapmap.ncbi.nlm.nih.gov.
  • 18
    • 84890618967 scopus 로고    scopus 로고
    • Biomarker Validation
    • In: C. Wild, Vineis P, Garte S, eds, Chichester, UK: John Wiley & Sons, Ltd
    • Vineis P, Garte S. Biomarker Validation. In: C. Wild, Vineis P, Garte S, eds. Molecular Epidemiology of Chronic Diseases. Chichester, UK: John Wiley & Sons, Ltd, 2008:pg72.
    • (2008) Molecular Epidemiology of Chronic Diseases , pp. 72
    • Vineis, P.1    Garte, S.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.