NDLI: Executable Petri net models for the analysis of metabolic pathways

Content Provider	Springer Nature Link
Author	Genrich, Hartmann Küffner, Robert Voss, Klaus
Copyright Year	2001
Abstract	Computer-assisted simulation of biochemical processes is a means to augment the knowledge about the control mechanisms of such processes in particular organisms. This knowledge can be helpful for the goal-oriented design of drugs. Normally, continuous models (differential equations) are chosen for modelling such processes. The application of discrete event systems such as Petri nets has been restricted in the past to low-level modelling and qualitative analysis. To demonstrate that Petri nets are indeed suitable for simulating metabolic pathways, the glycolysis and citric acid cycle are selected as well-understood examples of enzymatic reaction chains (metabolic pathways). The paper discusses the steps that lead from gaining necessary knowledge about the involved enzymes and substances, to establishing and tuning high-level net models, to performing a series of simulations, and finally to analysing the results. We show that the consistent application of the Petri net view to these tasks has certain advantages, and – using advanced net tools – reasonable simulation times can be achieved.
Starting Page	394
Ending Page	404
Page Count	11
File Format	PDF
ISSN	14332779
Journal	International Journal on Software Tools for Technology Transfer
Volume Number	3
Issue Number	4
Language	English
Publisher	Springer-Verlag
Publisher Date	2001-09-01
Publisher Place	Berlin, Heidelberg
Access Restriction	One Nation One Subscription (ONOS)
Content Type	Text
Resource Type	Article
Subject	Information Systems Software

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Creating executable models of influence nets with colored Petri nets

The Petri Net Kernel An infrastructure for building Petri net tools

Web-based interfaces for simulation of coloured Petri net models

A compact Petri net representation and its implications for analysis

Modeling and analysis of the behavior of information systems

Method of security against computer attacks based on an analysis of executable machine code

Mapping annotated sequence diagram to a Petri net notation for reliability evaluation

Utilizing an Executable Specification Language for an Information System

Petri net representations in metabolic pathways (1993)

Executable Petri net models for the analysis of metabolic pathways

Similar Documents

Creating executable models of influence nets with colored Petri nets

The Petri Net Kernel An infrastructure for building Petri net tools

Web-based interfaces for simulation of coloured Petri net models

A compact Petri net representation and its implications for analysis

Modeling and analysis of the behavior of information systems

Method of security against computer attacks based on an analysis of executable machine code

Mapping annotated sequence diagram to a Petri net notation for reliability evaluation

Utilizing an Executable Specification Language for an Information System

Petri net representations in metabolic pathways (1993)

Executable Petri net models for the analysis of metabolic pathways