A Robustness Analysis of Dynamic Boolean Models of Cellular Circuits

Ariel Bruner, Roded Sharan*

*Corresponding author for this work

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

Abstract

With ever growing amounts of omics data, the next challenge in biological research is the interpretation of these data to gain mechanistic insights about cellular function. Dynamic models of cellular circuits that capture the activity levels of proteins and other molecules over time offer great expressive power by allowing the simulation of the effects of specific internal or external perturbations on the workings of the cell. However, the study of such models is at its infancy and no large scale analysis of the robustness of real models to changing conditions has been conducted to date. Here we provide a computational framework to study the robustness of such models using a combination of stochastic simulations and integer linear programming techniques. We apply our framework to a large collection of cellular circuits and benchmark the results against randomized models. We find that the steady states of real circuits tend to be more robust in multiple aspects compared to their randomized counterparts.

Original languageEnglish
Title of host publicationBioinformatics Research and Applications - 15th International Symposium, ISBRA 2019, Proceedings
EditorsMin Li, Zhipeng Cai, Pavel Skums
PublisherSpringer Verlag
Pages183-195
Number of pages13
ISBN (Print)9783030202415
DOIs
StatePublished - 2019
Event15th International Symposium on Bioinformatics Research and Applications, ISBRA 2019 - Barcelona, Spain
Duration: 3 Jun 20196 Jun 2019

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume11490 LNBI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference15th International Symposium on Bioinformatics Research and Applications, ISBRA 2019
Country/TerritorySpain
CityBarcelona
Period3/06/196/06/19

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