Model checking tap withdrawal in c. Elegans

Md Ariful Islam, Richard De Francisco, Chuchu Fan, Radu Grosu, Sayan Mitra, Scott A. Smolka

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

2 Scopus citations

Abstract

We present what we believe to be the first formal verification of a biologically realistic (nonlinear ODE) model of a neural circuit in a multicellular organism: Tap Withdrawal (TW) in C. Elegans, the common roundworm. TW is a reflexive behavior exhibited by C. Elegans in response to vibrating the surface on which it is moving; the neural circuit underlying this response is the subject of this investigation. Specially, we perform reach-tube-based reachability analysis on the TW circuit model of Wicks et al. (1996) to estimate key model parameters. Underlying our approach is the use of Fan and Mitra’s recently developed technique for automatically computing local discrepancy (convergence and divergence rates) of general nonlinear systems. The results we obtain are a significant extension of those of Wicks et al. (1996), who equip their model with fixed parameter values that reproduce the predominant TW response they observed experimentally in a population of 590 worms. In contrast, our techniques allow us to much more fully explore the model’s parameter space, identifying in the process the parameter ranges responsible for the predominant behavior as well as the non-dominant ones. The verification framework we developed to conduct this analysis is model-agnostic, and can thus be re-used on other complex nonlinear systems.

Original languageEnglish (US)
Title of host publicationHybrid Systems Biology - 4th International Workshop, HSB 2015, Revised Selected Papers
EditorsAlessandro Abate, David Šafránek
PublisherSpringer Verlag
Pages195-210
Number of pages16
ISBN (Print)9783319269153
DOIs
StatePublished - 2015
Externally publishedYes
Event4th International Workshop on Hybrid Systems Biology, HSB 2015 - Madrid, Spain
Duration: Sep 4 2015Sep 5 2015

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume9271
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference4th International Workshop on Hybrid Systems Biology, HSB 2015
CountrySpain
CityMadrid
Period9/4/159/5/15

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)

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