Question: Burden test interpretation
0
gravatar for fbsja
5.7 years ago by
fbsja0
United Kingdom
fbsja0 wrote:

 

Hi can someone help me with the interpretation of these results please :

I've done a case-control burden test using pseq for 12 cases and 28 controls

LOCUS    POS    ALIAS    NVAR    TEST    P    I    DESC

NM_000016    chr1:76190072..76229221    34,ACADM    64    BURDEN    1    0.2    313/147

How do I interpret (313/147) column for 64 variants? Also what is the usual threshold for I, P?

cheers

pseq plink association • 2.5k views
ADD COMMENTlink written 5.7 years ago by fbsja0

Take a look at the documentation. "For the BURDEN test, the DESC field contains the number of case/control minor alleles."

ADD REPLYlink written 5.7 years ago by Katie D'Aco1000

cheers for the reply.I was just wondering  whether the fraction 313/147 should be within 12 cases /28 controls (if there was some kind of normalisation going on) ...from all the examples i've seen online it just seemed to be the case..

ADD REPLYlink written 5.7 years ago by fbsja0

From my understanding there is no normalization, these are just raw counts.

ADD REPLYlink written 5.7 years ago by Katie D'Aco1000

thanks Katie!

ADD REPLYlink written 5.7 years ago by fbsja0
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