Display Settings:

Format

Send to:

Choose Destination
See comment in PubMed Commons below
J Am Med Inform Assoc. 2005 Mar-Apr;12(2):181-99. Epub 2004 Nov 23.

Using Petri Net tools to study properties and dynamics of biological systems.

Author information

  • 1Department of Management Information Systems, Rabin Building, University of Haifa, Haifa 31905, Israel. morpeleg@mis.hevra.haifa.ac.il

Abstract

Petri Nets (PNs) and their extensions are promising methods for modeling and simulating biological systems. We surveyed PN formalisms and tools and compared them based on their mathematical capabilities as well as by their appropriateness to represent typical biological processes. We measured the ability of these tools to model specific features of biological systems and answer a set of biological questions that we defined. We found that different tools are required to provide all capabilities that we assessed. We created software to translate a generic PN model into most of the formalisms and tools discussed. We have also made available three models and suggest that a library of such models would catalyze progress in qualitative modeling via PNs. Development and wide adoption of common formats would enable researchers to share models and use different tools to analyze them without the need to convert to proprietary formats.

PMID:
15561791
[PubMed - indexed for MEDLINE]
PMCID:
PMC551550
Free PMC Article

Images from this publication.See all images (8)Free text

Figure 1.
Figure 2.
Figure 3.
Figure 4.
Figure 5.
Figure 6.
Figure 7.
Figure 8
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Icon for HighWire Icon for PubMed Central
    Loading ...
    Write to the Help Desk