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QSSPN specifications

Information


Unique identifier OMICS_16917
Name QSSPN
Alternative name quasi-steady state Petri nets
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The model input files can be created in general Petri Net editor Snoopy or directly written as text files.
Input format TXT
Operating system Unix/Linux, Mac OS, Windows
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Andrzej Kierzek

Publication for quasi-steady state Petri nets

QSSPN citations

 (4)
library_books

Linking physiologically based pharmacokinetic and genome scale metabolic networks to understand estradiol biology

2017
BMC Syst Biol
PMCID: 5732473
PMID: 29246152
DOI: 10.1186/s12918-017-0520-3

[…] odel was constructed in MuFINS [], in which ODE-based networks are represented in Petri net (PN) formalism and linked to the GSMN through special directed arcs using our quasi steady-state Petri net (QSSPN) approach []. This allows connection of metabolite (fluxes) between the PN and GSMN parts of the model, as well as the setting of flux bounds within the GSMN by the PN part of the model.An advan […]

library_books

Integration of Genome Scale Metabolic Networks and Gene Regulation of Metabolic Enzymes With Physiologically Based Pharmacokinetics

2017
PMCID: 5702902
PMID: 28782239
DOI: 10.1002/psp4.12230

[…] ous perturbations, such as exposure to chronic stress and patient‐specific liver metabolism (Figure ). The multiscale model used in our example was built using MUFINS software and simulated using the qsspn simulator (available as part of the MUFINS package). The model and software required for its execution are available in the Supplementary Material.We have used the human PBPK model with an examp […]

library_books

MUFINS: multi formalism interaction network simulator

2016
NPJ Syst Biol Appl
PMCID: 5516860
PMID: 28725480
DOI: 10.1038/npjsba.2016.32

[…] r, as MILP implementation in GLPK is inefficient, a version of sfba ready for use with Gurobi library is provided to facilitate the application of MILP-based protocols (e.g., iMAT) on GSMN models.The qsspn is a computational engine for integration of dynamic and CBM models. It implements QSSPN approach, where a dynamic model constructed in Petri Net (PN) formalism is connected to a steady-state Fl […]

library_books

Association Analysis of Grain setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

2015
Front Plant Sci
PMCID: 4653486
PMID: 26635852
DOI: 10.3389/fpls.2015.01029

[…] ity were detected in 13 chromosomal regions using a recombinant inbreb line (RIL) population derived from the cross Nanda 2419 × Wangshuibai and an immortalized F2(IF2) population (Ma et al., ). QTLs QSspn.nau-4A and QSspn.nau-5A were detected in both populations. One QTL for floret infertility was detected in the interval Xwmc112-Xbarc168 in chromosome 2D using a Xiaoyan 54 × Jing 411 RIL populat […]


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QSSPN institution(s)
Faculty of Health and Medical Sciences, School of Biosciences and Medicine, University of Surrey, Guildford, Surrey, UK
QSSPN funding source(s)
This work was supported by Biotechnology and Biological Sciences Research Council grant BB/I008195/1 and Era SysBioPlus TB-HOST-NET grant (BB/I00453X/1).

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