I am currently working on a task that requires me to assess the shared GO terms between protein pairs. I have 30,000 protein pairs (PPI data) and I would like to determine the depth/level in the GO hierarchy that each protein pair shares. Could anyone please suggest how to proceed with this? Thanks a lot!
Example: 2 gene products: AFUA_5G07340 and AFUA_2G11040 Task: Find the shared GO terms between the protein pair and determine the level/depth in the GO hierarchy (where molecular function, cellular component, and biological process can be assigned level 3 in the hierarchy). I have to perform this task for 30,000 protein pairs.
I hope this question is clear. Please let me know if there are any doubts.