[BioC] OddsRatio in COstats

James W. MacDonald jmacdon at med.umich.edu
Tue May 20 16:46:39 CEST 2008

Hi Mikhail,

Mikhail Pachkov wrote:
> Dear All,
> Could somebody explain me how exactly odds ratio is calculated by
> hgCondOver in GOstats?

No idea what hgCondOver is. However, the odds ratio is calculated the 
'regular' way. Say you have a 2x2 table like this:

	inGO	notInGo
Sel	N11	N12
NotSel	N21	N22

Then the OR is calculated as (N11*N22)/(N21*N12).

The only difference with a conditional or directional analysis is how 
you calculate the universe or decide what is differentially expressed.



> Thank you in advance!
> Mikhail
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James W. MacDonald, M.S.
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109

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