Conclusions from Volcano plot

Question

[tiago211287]

What kind of conclusions is possible to take from volcanoplots. Only the visual apperance of thel number of deexpress or super express genes?

[linus]

A volcano plot as long as it is not interactive gives only an overview about the data. It is basically a scatter plot of fold change and p-value.

It is a nice visualization of the data, but without a list of the significant genes nothing more.

[tiago211287]

Thanks linus. I was seeking this kind of answer.

[Alex Reynolds]

http://en.wikipedia.org/wiki/Volcano_plot_(statistics)

Answer 1

[Manvendra Singh]

I like volcano plot's visualization, It gives over view of fraction of differentially expressed genes compared with total number of genes. You can subset your data with p-value threshold and Fold change threshold, and annotate your upper right and upper left genes on the plot. Then you can go for Gene-set enrichment or ontology with annotated ones and could give total genes in plot as background.

you can consider this as answer also to your post.

[tiago211287]

Amazing answer! Thank you!