RNA-seq for drug targets

Question

[chipolino]

Hi everyone!

Are there any special or classic techniques for finding potential drug targets with RNA-seq analysis? Say, we have 2 conditions (normal and disease) and it's time-series data (4-5 time points). Should we build gene-regulatory networks and look at DE genes/proteins that form connection "hot spots" (interact with big number of proteins/genes)? Or there are other and better ways? Sorry, just entered this field, maybe there are indeed classical approaches for this type of analysis. Thanks!

Answer 1

[Kevin Blighe]

There are "many" options, as expressed by my colleague, Malachi: Drug to Target/Gene/Protein Interaction Databases

His post was > 6 years ago (currently August, 2018), so, a lot of those may have been updated or may not even exist any longer.

Other ones of which I know include:

• Open Targets: a platform for therapeutic target identification and validation
• Open PHACTS

[Note: open PHACTS links together many other databases.]

My own experience of working with these databases is that they hold much promise.

Kevin