Rule-based Modelling of Biological Systems Using Regulated Rewriting

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F23%3A00134056" target="_blank" >RIV/00216224:14330/23:00134056 - isvavai.cz</a>

Result on the web

<a href="https://www.sciencedirect.com/science/article/pii/S0303264723000187" target="_blank" >https://www.sciencedirect.com/science/article/pii/S0303264723000187</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1016/j.biosystems.2023.104843" target="_blank" >10.1016/j.biosystems.2023.104843</a>

Result language

angličtina

Original language name

Rule-based Modelling of Biological Systems Using Regulated Rewriting

Original language description

In systems biology, models play a crucial role in understanding studied systems. There are many modelling approaches, among which rewriting systems provide a framework for describing systems on a mechanistic level. Describing biochemical processes often requires incorporating knowledge on an abstract level to simplify the system description or substitute the missing details. For this purpose, we present regulation mechanisms, an extension of this formalism with additional controls on the rewriting process. We introduce several regulation mechanisms and apply them to a rule-based language, a notation suitable for modelling biological phenomena. Finally, we demonstrate the usage of such regulations on several case studies from the biochemical domain.

Czech name

—

Czech description

—

Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

—

OECD FORD branch

10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Project

<a href="/en/project/GA22-10845S" target="_blank" >GA22-10845S: Unraveling the role of polyhydroxyalkanoates in Schlegelella thermodepolymerans – promising environmental bacterium for next generation biotechnology</a><br>

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2023

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Biosystems

ISSN

0303-2647

e-ISSN

—

Volume of the periodical

225

Issue of the periodical within the volume

104843

Country of publishing house

IE - IRELAND

Number of pages

15

Pages from-to

1-15

UT code for WoS article

000933884300001

EID of the result in the Scopus database

2-s2.0-85147549320