DAVID: functional annotation chart result explanation
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6.0 years ago
yliueagle ▴ 230

I am using the DAVID 6.7 to do some functional annotation analysis http://david.abcc.ncifcrf.gov/

I submitted my interested gene list(human), and used the default Homo Sapiens as background. 

In the annotation summary results, I viewed the 'Chart' under the Gene Ontology categories.

Inside this 'Chart' view, there is an 'option' button and I can choose to display all items like 'Fold Enrichment', 'Bonferroni', 'Benjamini', 'FDR', 'Fisher Exact', 'LT,PH,PT', '# of Records'. The question is, what are the meanings of these items, and how are they calculated?

For example, what is the 'Benjamini'? For my understanding, it may related to the 'Benjamini Hochberg FDR' value, but in fact there is already the item 'FDR'. And how is the 'Bonferroni' calculated? For my knowledge, it should be the single p-value divided by the total number of test, but my result doesn't show this fixed relationship. Any way, where can I find detailed information of the displayed result? I didn't find from the 'help and manual'.

DAVID annotation • 9.2k views
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6.0 years ago

Link to the table 2 of the DAVID paper: http://www.nature.com/nprot/journal/v4/n1/fig_tab/nprot.2008.211_T2.html

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