Can you get information about variance of microarrays experiments from a MA plot ?
1
0
Entering edit mode
4.1 years ago

Can you actually get this kind of information from a MA plot ?

The plot suggests that the variance of the individual transcriptomic experiments is high and that a high number of genes in the plot biological replicates show high standard deviations and are out of the range for replicates.

This is referred to a microarray experiment with data already normalized If so.. How ?

enter image description here

MA plot microarray • 734 views
ADD COMMENT
0
Entering edit mode
4.1 years ago

If you color dots by significance you can see those with decent A and large M that are not significant. Those will necessarily show higher variance between replicates (otherwise they'd be significant). However, that's basically the extent that one can asses variance from an MA plot and I think it's generally unwise to use it for such purposes (if you want to assess variance, then look at variance or a PCA).

ADD COMMENT

Login before adding your answer.

Traffic: 1878 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6