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
Their training videos and webinars are great resources. Just have about 2 extra cups of coffee before hand.
http://www.ingenuity.com/products/ipa#/?tab=training
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