Bio-Stark: A Tool for the Time-Point Robustness Analysis of Biological Systems

Valentina Castiglioni (Corresponding author), Michele Loreti, Simone Tini

Research output: Chapter in Book/Report/Conference proceedingConference contributionAcademicpeer-review

2 Citations (Scopus)

Abstract

We present Bio-Stark, an extension of Stark for the simulation and analysis of biological systems. Specifically, to simulate the stochastic, dynamical, behaviour of these systems, Bio-Stark exploits the core simulation model of Stark, the evolution sequence model, and it extends it by refining the discrete step modelling into a time point modelling. We show how Bio-Stark allows us to verify robustness properties in systems biology, by capturing the effects of (unpredictable) perturbations on species in biochemical networks, as well as on the oscillatory behaviour of gene regulatory networks.

Original languageEnglish
Title of host publicationComputational Methods in Systems Biology
Subtitle of host publication22nd International Conference, CMSB 2024, Pisa, Italy, September 16–18, 2024, Proceeding
EditorsRoberta Gori, Paolo Milazzo, Mirco Tribastone
Place of PublicationCham
PublisherSpringer
Pages62-70
Number of pages9
ISBN (Electronic)978-3-031-71671-3
ISBN (Print)978-3-031-71670-6
DOIs
Publication statusPublished - 19 Sept 2024
Event22nd International Conference on Computational Methods in Systems Biology, CMSB 2024 - Pisa, Italy
Duration: 16 Sept 202418 Sept 2024

Publication series

NameLecture Notes in Computer Science (LNCS)
Volume14971
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349
NameLecture Notes in Bioinformatics (LNBI)
Volume14971
ISSN (Print)2366-6323
ISSN (Electronic)2366-6331

Conference

Conference22nd International Conference on Computational Methods in Systems Biology, CMSB 2024
Country/TerritoryItaly
CityPisa
Period16/09/2418/09/24

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