Question: The Calculation of Enrichment Score and Group Enrichment Score in gene set enrichment analysis DAVID?
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gravatar for mohammadi13371364
19 months ago by
mohammadi133713640 wrote:

I am new to bioinformatics, I'm wonder is there a Calculation of Enrichment Score (ES) and Group Enrichment Score, such as geometric mean of member's p-values? The question that I have is based on that calculate ES, how I can obtain the group enrichment score using any program or formula? Can you explain about ES or Group ES formula calculation with toy example, please? Thank you.

snp rna-seq • 1.3k views
ADD COMMENTlink modified 17 months ago by zhao0330 • written 19 months ago by mohammadi133713640
0
gravatar for Kevin Blighe
17 months ago by
Kevin Blighe63k
Kevin Blighe63k wrote:

You mention DAVID in your question title. Indeed, DAVID will enrich your genes for, for example, Gene Ontology terms, and then it can also group these enriched terms into clusters, assigning an enrichment 'score' to each cluster in the process.

Take a look at the Functional Annotation Chart and Functional Annotation Clustering sections of DAVID.

This is the most basic way to do what you want.

Kevin

ADD COMMENTlink written 17 months ago by Kevin Blighe63k
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gravatar for zhao03
17 months ago by
zhao0330
zhao0330 wrote:

GSEA can obtain ES and p-value. I hope that will be helpful.

ADD COMMENTlink written 17 months ago by zhao0330
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