Prashant -

I am not familiar with your subject, but I can tell you that an isolated p-value is misleading.

 https://www.researchgate.net/publication/262971440_Practical_Interpretation_of_Hypothesis_Tests_-_letter_to_the_editor_-_TAS

However, in this case, if you are making comparisons between items with the same sample sizes, maybe there is value in relative comparisons. ??? 

Best wishes - Jim 

Article Practical Interpretation of Hypothesis Tests - letter to the...

That was the case. In the original dataset, the p value is given by comparing the condition/control and calculating the log ratio But upon analysis by NetwoRx, one-sided P-value was computed corresponding to the Z-score defined by the Gene Set Score. For me, its still difficult to explain.

Thank you very much,

I attached the paper. 

Prashant -

Sorry, I am not a networks expert, but I sent your question to someone who does know that topic.  However, I think she is very busy and may not have a response for you.  We will see.

Best wishes - Jim

PS -  Perhaps you might obtain more responses by posting under social networks and/or neural networks, as I don't see simply "networks" as a ResearchGate topic.  Anyway, you might find a topic category for this or a similar question that could reach more people working in this area.