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Correction: DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

Jordana T Bell13*, Athma A Pai1, Joseph K Pickrell1, Daniel J Gaffney12, Roger Pique-Regi1, Jacob F Degner1, Yoav Gilad1* and Jonathan K Pritchard12*

Author affiliations

1 Department of Human Genetics, The University of Chicago, 920 E. 58th St, Chicago, IL 60637, USA

2 Howard Hughes Medical Institute, The University of Chicago, 920 E. 58th St, Chicago, IL 60637, USA

3 Current address: Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK

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Citation and License

Genome Biology 2011, 12:405  doi:10.1186/gb-2011-12-6-405

Published: 3 July 2011

First paragraph (this article has no abstract)

We showed in our study [1] that SNP rs10876043 in the disco-interacting protein 2 homolog B gene (DIP2B) was associated with the first principal component of methylation. Although the analyses and result remain unchanged, it appears that this observation is likely due to a genotyping artifact. That is, the reported rs10876043 genotypes differ according to HapMap Phase (cell lines genotyped in Phase 1/2 have reported genotypes AG and GG, while Phase 3 cell lines have genotype AA). The 1000 Genomes data suggest the correct genotype is probably AA for all of these YRI individuals. These genotype differences between different phases of the HapMap Project, coupled with a small difference in mean methylation between Phase 1/2 vs 3 cell lines appear to have produced an artifactual association. Other analyses in the paper controlled for the top principal components and should therefore be robust to this type of effect.