Entering edit mode
3.8 years ago
revenge.com
•
0
Is gene ontology a form of pathway analysis?? I would like to know more about "pathway analysis" as it seems like a very broad topic that involves several things, like gene enrichment analysis, KEGG, gene ontology etc...
No, it is not. Gene ontologies are attempts to find sets of controlled vocabularies to describe gene functions, see their documentation here.
I recommend you start by reading this summary by Khatri et al.
Thank you for responding Friedderike!
In terms of Gene Enrichment Analysis....is this a way to DO pathway analysis??
Pathway analysis is similar to Gene Enrichment analysis.
GO terms are represented in a giant network (technically a directed acyclic graph) and there can be a lot of redundancy. For example, there are GO terms for inflammation, acute inflammation, response to acute inflammation, regulation of inflammation, etc.
If you take a gene set enriched in tissue from a burn wound or something, you will probably see enrichment for a ton of very similar GO terms. This can be helpful or super annoying depending on what you want to do with your analysis.
Pathway enrichment tends to be a bit more limited (since we haven't mapped out that many pathways fully), but can be really nice because you'll get a more succinct answer ("Ah, the inflammation and DNA-damage pathways are enriched!)