Question: Inferring gene regulatory networks - evaluation
gravatar for Zara
2.1 years ago by
Zara20 wrote:

Hi everyone,

I'm using DREAM  4 challenge data in order to evaluate my gene regulatory inference method.

I have a couple of questions:

1- How should I use the perturbation data. I don't know what does G1(-/-) or G1(+/-) mean. Does this plus and minus signs represent mutations? How come we have two sign seperated with a slash?

2- In several papers* I read that a linear regression model (or something close to it) has been quite sufficient for network inference. I don't get any good result with a sparse linear regression model. Am I missing something? 

* for example the model proposed by Inferelator is almost linear, the models described in

use a weighted sum as the effect of genes on each other.

However I could not get good results using this weighted sum function. I tested several datasets (DREAM 4 and 3 in silico data, SOS network data, ... ) 

Can anyone help me in this case?

Any help is appreciated. 

ADD COMMENTlink modified 23 months ago by Biostar ♦♦ 20 • written 2.1 years ago by Zara20
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 634 users visited in the last hour