Genetics shapes methylation and expression
In HapMap LCLs, promoter methylation associates with genetic variants and transcript levels.
Source
DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines
Study at a glance
- Design
- Cross-sectional — Illumina 27K promoter methylation in Yoruba HapMap LCLs linked to genotypes and RNA-seq
- N
- N=77 · 77 LCLs; RNA-seq available for 69
- Population
- HapMap Yoruba lymphoblastoid cell lines
- Outcome
- Genetic and expression correlates of inter-individual DNA methylation
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Genetics shapes methylation and expression
These passages occur verbatim in the stored paper text. They support the points listed below; they do not verify every statement in the explanation.
HapMap lymphoblastoid cell lines.
Background DNA methylation plays an important regulatory role in eukaryotic genomes.
Genome-wide promoter DNA methylation.
Alterations in methylation can affect transcription and phenotypic variation [], but the source of variation in DNA methylation itself remains poorly understood.
What they did
Illumina 27K methylation in 77 Yoruba LCLs related to genotypes and RNA-seq.
What they found
Inter-individual methylation variation tracks genetics and correlates with expression.
The limits
What it doesn't show
LCLs are transformed lines, so results may differ from primary tissues.
Key terms
- LCL
- Lymphoblastoid cell line.
- meQTL
- Variant associated with methylation.
- Promoter methylation
- CpG methylation near TSS.
- HapMap YRI
- Yoruba panel.
- Bisulfite array
- Illumina methylation chip.
- eQTL link
- Methylation–expression coupling.
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Common questions
Samples?
77 YRI LCLs.
Array?
Methylation27.
Expression?
RNA-seq.
Human?
Yes.
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