Abstract:
AIM:We compared predictive modeling approaches to estimate placental methylation using cord blood methylation. MATERIALS & METHODS:We performed locus-specific methylation prediction using both linear regression and support vector machine models with 174 matched pairs of 450k arrays. RESULTS:At most CpG sites, both approaches gave poor predictions in spite of a misleading improvement in array-wide correlation. CpG islands and gene promoters, but not enhancers, were the genomic contexts where the correlation between measured and predicted placental methylation levels achieved higher values. We provide a list of 714 sites where both models achieved an R2 ≥0.75. CONCLUSION:The present study indicates the need for caution in interpreting cross-tissue predictions. Few methylation sites can be predicted between cord blood and placenta.
journal_name
Epigenomicsjournal_title
Epigenomicsauthors
De Carli MM,Baccarelli AA,Trevisi L,Pantic I,Brennan KJ,Hacker MR,Loudon H,Brunst KJ,Wright RO,Wright RJ,Just ACdoi
10.2217/epi-2016-0109subject
Has Abstractpub_date
2017-03-01 00:00:00pages
231-240issue
3eissn
1750-1911issn
1750-192Xjournal_volume
9pub_type
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