Please use this identifier to cite or link to this item: https://doi.org/10.4161/epi.22102
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dc.titleMeasuring the methylome in clinical samples: Improved processing of the infinium human methylation450 beadchip array
dc.contributor.authorPan H.
dc.contributor.authorChen L.
dc.contributor.authorDogra S.
dc.contributor.authorTeh A.L.
dc.contributor.authorTan J.H.
dc.contributor.authorLim Y.I.
dc.contributor.authorLim Y.C.
dc.contributor.authorJin S.
dc.contributor.authorLee Y.K.
dc.contributor.authorNg P.Y.
dc.contributor.authorOng M.L.
dc.contributor.authorBarton S.
dc.contributor.authorChong Y.-S.
dc.contributor.authorMeaney M.J.
dc.contributor.authorGluckman P.D.
dc.contributor.authorStunkel W.
dc.contributor.authorDing C.
dc.contributor.authorHolbrook J.D.
dc.date.accessioned2021-01-23T07:45:50Z
dc.date.available2021-01-23T07:45:50Z
dc.date.issued2012
dc.identifier.citationPan H., Chen L., Dogra S., Teh A.L., Tan J.H., Lim Y.I., Lim Y.C., Jin S., Lee Y.K., Ng P.Y., Ong M.L., Barton S., Chong Y.-S., Meaney M.J., Gluckman P.D., Stunkel W., Ding C., Holbrook J.D. (2012). Measuring the methylome in clinical samples: Improved processing of the infinium human methylation450 beadchip array. Epigenetics 7 (10) : Jan-15. ScholarBank@NUS Repository. https://doi.org/10.4161/epi.22102
dc.identifier.issn15592294
dc.identifier.urihttps://scholarbank.nus.edu.sg/handle/10635/185702
dc.description.abstractThe Infinium Human Methylation450 BeadChip ArrayTM (Infinium 450K) is an important tool for studying epigenetic patterns associated with disease. This array offers a high-throughput, low cost alternative to more comprehensive sequencing-based methodologies. Here we compare data generated by interrogation of the same seven clinical samples by Infinium 450K and reduced representation bisulfite sequencing (RRBS). This is the largest data set comparing Infinium 450K array to the comprehensive RRBS methodology reported so far. We show good agreement between the two methodologies. A read depth of four or more reads in the RRBS data was sufficient to achieve good agreement with Infinium 450K. However, we observe that intermediate methylation values (20-80%) are more variable between technologies than values at the extremes of the bimodal methylation distribution. We describe careful processing of Infinium 450K data to correct for known limitations and batch effects. Using methodologies proposed by others and newly implemented and combined in this report, agreement of Infinium 450K data with independent techniques can be vastly improved. © 2012 Landes Bioscience.
dc.language.isoen
dc.publisherTaylor and Francis Inc.
dc.sourceScopus
dc.subjectClinical sample
dc.subjectDNA methylation
dc.subjectEWAS
dc.subjectGenome-wide
dc.subjectInfiniumHD array
dc.subjectRRBS
dc.typeArticle
dc.contributor.departmentDEPT OF OBSTETRICS & GYNAECOLOGY
dc.description.doi10.4161/epi.22102
dc.description.sourcetitleEpigenetics
dc.description.volume7
dc.description.issue10
dc.description.pageJan-15
dc.published.statePublished
dc.grant.idNMRC/TCR/004-NUS/2008
dc.grant.idNMRC/TCR/012-NUHS/2014
dc.grant.fundingagencyNational Medical Research Council
dc.description.seriesGUSTO (Growing up towards Healthy Outcomes)
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