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Volumn 9, Issue 2, 2014, Pages 318-329

A systematic assessment of normalization approaches for the Infinium 450K methylation platform

Author keywords

Association testing; Cotinine exposure; Genome wide methylation profiling; Normalization; Reproducibility

Indexed keywords

COTININE;

EID: 84892564202     PISSN: 15592294     EISSN: 15592308     Source Type: Journal    
DOI: 10.4161/epi.27119     Document Type: Article
Times cited : (53)

References (24)
  • 1
    • 84867669870 scopus 로고    scopus 로고
    • The allure of the epigenome
    • PMID:23092546
    • Attar N. The allure of the epigenome. Genome Biol 2012; 13:419; PMID:23092546; http://dx.doi. org/10.1186/gb-2012-13-10-419
    • (2012) Genome Biol , vol.13 , pp. 419
    • Attar, N.1
  • 3
    • 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 2011; 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
  • 5
    • 84872016931 scopus 로고    scopus 로고
    • Exploring genome-wide DNA methylation profiles altered in hepatocellular carcinoma using Infinium HumanMethylation 450 BeadChips
    • Shen J, Wang S, Zhang YJ, Wu HC, Kibriya MG, Jasmine F, et al. Exploring genome-wide DNA methylation profiles altered in hepatocellular carcinoma using Infinium HumanMethylation 450 BeadChips. Epigenetics 2013; 8:0-1.
    • (2013) Epigenetics , vol.8 , pp. 0-1
    • Shen, J.1    Wang, S.2    Zhang, Y.J.3    Wu, H.C.4    Kibriya, M.G.5    Jasmine, F.6
  • 6
    • 84872132897 scopus 로고    scopus 로고
    • DNA methylation profiling in breast cancer discordant identical twins identifies DOK7 as novel epigenetic biomarker
    • PMID:23054610
    • Heyn H, Carmona FJ, Gomez A, Ferreira HJ, Bell JT, Sayols S, Ward K, Stefansson OA, Moran S, Sandoval J, et al. DNA methylation profiling in breast cancer discordant identical twins identifies DOK7 as novel epigenetic biomarker. Carcinogenesis 2013; 34:102-8; PMID:23054610; http://dx.doi.org/10.1093/ carcin/bgs321
    • (2013) Carcinogenesis , vol.34 , pp. 102-108
    • Heyn, H.1    Carmona, F.J.2    Gomez, A.3    Ferreira, H.J.4    Bell, J.T.5    Sayols, S.6    Ward, K.7    Stefansson, O.A.8    Moran, S.9    Sandoval, J.10
  • 9
    • 84871688621 scopus 로고    scopus 로고
    • Analysing and interpreting DNA methylation data
    • PMID:22986265
    • Bock C. Analysing and interpreting DNA methylation data. Nat Rev Genet 2012; 13:705-19; PMID:22986265; http://dx.doi.org/10.1038/ nrg3273
    • (2012) Nat Rev Genet , vol.13 , pp. 705-719
    • Bock, C.1
  • 10
    • 84874353239 scopus 로고    scopus 로고
    • Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray
    • Chen Y, Lemire M, Choufani S, Butcher DT, Grafodatskaya D, Zanke BW, et al. Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray. Epigenetics 2013; 8:0-1.
    • (2013) Epigenetics , vol.8 , pp. 0-1
    • Chen, Y.1    Lemire, M.2    Choufani, S.3    Butcher, D.T.4    Grafodatskaya, D.5    Zanke, B.W.6
  • 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; 3:771-84; 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: Subsetquantile within array normalization for illumina infinium HumanMethylation450 BeadChips
    • PMID:22703947
    • Maksimovic J, Gordon L, Oshlack A. SWAN: Subsetquantile 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; 29:189-96; 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
  • 14
    • 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; 4:325-41; PMID:22690668; http://dx.doi.org/10.2217/epi.12.21
    • (2012) Epigenomics , vol.4 , pp. 325-341
    • Touleimat, N.1    Tost, J.2
  • 21
    • 33750216250 scopus 로고    scopus 로고
    • Cohort profile: The Norwegian Mother and Child Cohort Study (MoBa)
    • MoBa Study Group PMID:16926217
    • Magnus P, Irgens LM, Haug K, Nystad W, Skjaerven R, Stoltenberg C; MoBa Study Group. Cohort profile: the Norwegian Mother and Child Cohort Study (MoBa). Int J Epidemiol 2006; 35:1146-50; PMID:16926217; http://dx.doi.org/10.1093/ije/ dyl170
    • (2006) Int J Epidemiol , vol.35 , pp. 1146-1150
    • Magnus, P.1    Irgens, L.M.2    Haug, K.3    Nystad, W.4    Skjaerven, R.5    Stoltenberg, C.6
  • 24
    • 85011938876 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc, B 1995; 57:289-300
    • (1995) J R Stat Soc, B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.