Retrieving common dynamics of gene regulatory networks under various perturbations

Young Hwan Chang, Roel Dobbe, Palak Bhushan, Joe Gray, Claire J. Tomlin

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

2 Citations (Scopus)

Abstract

Recently, with the growth of high-throughput proteomic data, in particular time series gene expression data from various perturbations, a general question that has arisen is how to extract meaningful structure from inherently heterogeneous data. Little is known about exactly how these gene regulatory networks (GRNs) operate under different stimuli. Challenges due to the lack of knowledge may cause bias or uncertainty in identifying parameters or inferring the GRN structure. We propose a new algorithm which enables us to estimate bias error due to the effect of perturbations, and correctly identify the common graph structure among biased inferred graph structures. To do this, we retrieve common dynamics of the GRN subject to various perturbations inspired by image repairing in computer vision [1].

Original languageEnglish (US)
Title of host publicationProceedings of the IEEE Conference on Decision and Control
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages2531-2536
Number of pages6
Volume2016-February
ISBN (Print)9781479978861
DOIs
StatePublished - Feb 8 2016
Event54th IEEE Conference on Decision and Control, CDC 2015 - Osaka, Japan
Duration: Dec 15 2015Dec 18 2015

Other

Other54th IEEE Conference on Decision and Control, CDC 2015
CountryJapan
CityOsaka
Period12/15/1512/18/15

Fingerprint

Gene Regulatory Network
Genes
Perturbation
Proteomics
Graph in graph theory
Gene Expression Data
Time Series Data
Network Structure
Gene expression
Computer Vision
Computer vision
High Throughput
Biased
Time series
Throughput
Uncertainty
Estimate

ASJC Scopus subject areas

  • Control and Systems Engineering
  • Modeling and Simulation
  • Control and Optimization

Cite this

Chang, Y. H., Dobbe, R., Bhushan, P., Gray, J., & Tomlin, C. J. (2016). Retrieving common dynamics of gene regulatory networks under various perturbations. In Proceedings of the IEEE Conference on Decision and Control (Vol. 2016-February, pp. 2531-2536). [7402597] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/CDC.2015.7402597

Retrieving common dynamics of gene regulatory networks under various perturbations. / Chang, Young Hwan; Dobbe, Roel; Bhushan, Palak; Gray, Joe; Tomlin, Claire J.

Proceedings of the IEEE Conference on Decision and Control. Vol. 2016-February Institute of Electrical and Electronics Engineers Inc., 2016. p. 2531-2536 7402597.

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

Chang, YH, Dobbe, R, Bhushan, P, Gray, J & Tomlin, CJ 2016, Retrieving common dynamics of gene regulatory networks under various perturbations. in Proceedings of the IEEE Conference on Decision and Control. vol. 2016-February, 7402597, Institute of Electrical and Electronics Engineers Inc., pp. 2531-2536, 54th IEEE Conference on Decision and Control, CDC 2015, Osaka, Japan, 12/15/15. https://doi.org/10.1109/CDC.2015.7402597
Chang YH, Dobbe R, Bhushan P, Gray J, Tomlin CJ. Retrieving common dynamics of gene regulatory networks under various perturbations. In Proceedings of the IEEE Conference on Decision and Control. Vol. 2016-February. Institute of Electrical and Electronics Engineers Inc. 2016. p. 2531-2536. 7402597 https://doi.org/10.1109/CDC.2015.7402597
Chang, Young Hwan ; Dobbe, Roel ; Bhushan, Palak ; Gray, Joe ; Tomlin, Claire J. / Retrieving common dynamics of gene regulatory networks under various perturbations. Proceedings of the IEEE Conference on Decision and Control. Vol. 2016-February Institute of Electrical and Electronics Engineers Inc., 2016. pp. 2531-2536
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