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Old 11-14-2015, 07:13 AM   #1
cdias
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Location: Canada

Join Date: Jun 2012
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Default Motif enrichment in MEME - CentriMo

Hello,
I have a list of differentially epxressed gene for which I would like to see whether they are enriched over background (non DE genes) for a specific binding motif (looking at 10kb TSS).
I have used CentriMo for this but a) an not sure it's the best algoritham, and b) am unsure about the interpretation of the results.
Because I have only queried one motif, my e-value = p-value. However I'm not sure how to interpret the Fisher E-value.
Looking at the graph, there does not seem to be an enrichment.
The E-value is 3e-75, but the fisher E-value is 1. Per the literature I would interpret there is no enrichment over background. Am I correct?
Is there another more appropriate way to predict enrichment?
Thanks!
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Old 12-24-2015, 01:18 PM   #2
epigenereg
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I would suggest to try this: http://trap.molgen.mpg.de/cgi-bin/pastaa.cgi
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differential expression, enrichment, meme, motif, rna-seq

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