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GSEA for EWAS #3

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brianchengithub opened this issue Feb 5, 2019 · 0 comments

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Estimate: 1+ Weeks Priority: Long-term Status: Ready Type: Enhancement

brianchengithub commented Feb 5, 2019 •

edited by marcmaxson

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Incorporate this package into methylize:

https://github.com/aet21/ebGSEA

Citation:
https://www.ncbi.nlm.nih.gov/pubmed/30715212
https://academic.oup.com/bioinformatics/article/35/18/3514/5305022

Gene Set Enrichment Analysis (GSEA) is a general tool to aid biological interpretation, yet its correct and unbiased implementation in the EWAS context is difficult due to the differential probe representation of Illumina Infinium DNA methylation beadchips.

ebGSEA ranks genes, not CpGs, according to the overall level of differential methylation, as assessed using all the probes mapping to the given gene. ebGSEA may exhibit higher sensitivity and specificity.
https://github.com/aet21/ebGSEA

The text was updated successfully, but these errors were encountered:

brianchengithub added the medium priority label

nhrigby added Estimate: 1+ Weeks Priority: Long-term Status: Ready Type: Enhancement and removed short-term labels

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