Hello IPA users!

I am currently testing the IPA Software with my expression data and wonder if I follow the right strategy. I am working on a case with chronic lymphocytic leukemia (CLL) and a translocation, which led to a massive overexpression of a neural transcription factor in the aberrant B-cells of the patient.

I am trying to find out how the direct and indirect downstream targets of the TF have contributed to leukemia formation. I compared the gene expression in sorted B-cells of the patient to that of 8 normal probands. I used two samples of the patient from two different time points (one in the beginning and one after CLL relapse).

To analyze my data with IPA I compared the two time points and generated a list of genes deregulated in the same direction on both time points. Then I overlaid the targets of the overexpressed TF and known CLL genes. Now I am looking for connections between them. Since I have no experience, I am wondering if this is the right approach or if somebody can propose something else. 

Thank you very much for your answers!

Greetings from Austria,

Theodora