DREAM 3 challenge & paper “Improved Reconstruction of In Silico Gene Regulatory Networks by Integrating Knockout and Perturbation Data”

Q:

I am interested in exploring further the work did by you and your team
members in DREAM 3 challenge, as reported in the paper stated below. Do you
provide the codes/program for public to view? Thanks.

"Improved Reconstruction of In Silico Gene Regulatory Networks by Integrating Knockout and Perturbation Data"

I am ok with the current software which you said quite tailored to the competition. Please send it to me. Really appreciate it. Thanks.

A:
The current form of the software is quite tailored for the
competition, and we do not have a general, publicly distributable
version. I can send it to you if you think it would be useful.

Please find the version that we submitted to DREAM attached, together with some data and some script files for running it. If you have Apache Ant installed, simply issue the command "ant runall3" to run the program on the DREAM3 files. The size-10 networks are included, and the size-50 and size-100 networks can be downloaded from the DREAM web site.

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