Question: Cuffdiff Results Interpretation: High Fold Change But Not Significant
0
Qian Dong • 50 wrote:
Dear team,
I've been having some problem with cuffdiff results interpretation. I
understand that on for a certain sample, it has to have a log2(fold
change)
that is larger than the cutoff and also have a q-value that smaller
than a
cutoff. I have a lot of genes that have a really high fold change and
also
high q-values so they are 'not significant'.
My questions will be:
1. Since they are 'not signaficant', should I not take those genes
into
consideration even if they have high fold change?
2. Some of them have really low value_1 or value_2 (less than 1). Is
this
why they have a high q-value?
3. How can I get a high q-value if both value_1 and value_2 are quite
large
and the fold change is also large?
The reason I ask those questions is in my cuffdiff results, I found
some
really interesting genes of high fold change but they are 'not
significant'
. I am really not sure whether I have to give they up because of the
high
q-value.
Thank you very much,
Qian
--
Qian Dong
Bauer Lab, MCBD
Simon Hall: 313-317
212 S. Hawthorne Dr.
Bloomington, IN 47405
Email:dong3@indiana.edu
Lab Phone:812-855-8443
