Sparse biologically-constrained optimal perturbation of gene regulatory networks

Haoyu Wang, Nidhal Bouaynaya, Roman Shterenberg, Dan Schonfeld

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Abstract

This paper derives a sparse optimal perturbation of gene regulatory networks by determining the optimal perturbation of the minimal number of individual genes that force the network to settle into desired equilibrium states. Previous efforts have led to intervention in gene regulatory networks by deriving the optimal perturbation of the state probability transition matrix. Current technology in molecular biology, however, is limited to perturbation of the state of individual genes, not the state probability transition matrix. Our computer simulation experiments on the Human melanoma gene regulatory network demonstrate the superiority of the proposed approach to gene regulation in comparison to the previous methods based on the marginal of the optimal perturbation of the probability transition matrix of the network.

Original languageEnglish (US)
Title of host publication2013 IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2013 - Proceedings
Pages1167-1171
Number of pages5
DOIs
StatePublished - Oct 18 2013
Externally publishedYes
Event2013 38th IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2013 - Vancouver, BC, Canada
Duration: May 26 2013May 31 2013

Other

Other2013 38th IEEE International Conference on Acoustics, Speech, and Signal Processing, ICASSP 2013
CountryCanada
CityVancouver, BC
Period5/26/135/31/13

All Science Journal Classification (ASJC) codes

  • Software
  • Signal Processing
  • Electrical and Electronic Engineering

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