I am performing a transcriptomic analysis between control and treatment group. Using BLAST2GO, I have downloaded all KEGG pathways that my DE genes are involved in. However, I have multiple genes that then correspond to the same enzyme. For example, I have 10 different genes that all have ATPase activity within the purine metabolism pathway. Some of these genes are upregulated in my treatment group and some are downregulated, so I'm not sure how this then affects the overall enzymatic activity within the pathway. Does anyone have experience with this issue? I do not have access to expensive pathway analysis software such as IPA.
Thanks in advance for any advice!