The LiSyM Seek

6 items tagged with 'SBML'.

People (3)
Publications (3)

Jieling Zhao

Projects: Chronic Liver Disease Progression (LiSyM-DP - Pillar II), LiSyM network

Institutions: INRIA (French National Institute for Research in Computer Science and Control)

Disciplines: Not specified

Roles: Postdoc

Expertise: Spatio-temporal Modelling, computational biology, computational modelling, Bioinformatics

Tools: Computer Graphics, Deal.II, Computatinal Geometry, Qt, Multiscale simulation, SBML, Mathematical Modelling

No description specified

Lutz Brusch

Projects: Early Metabolic Injury (LiSyM-EMI - Pillar I), LiSyM PALs, LiSyM network

Institutions: Zentrum für Informationsdienste und Hochleistungsrechnen (ZIH), Technische Universität Dresden

orcid.org/0000-0003-0137-5106

Disciplines: Modeller

Roles: Not specified

Expertise: computational biology, Mathematical Modelling, Signal transduction, computational modelling, Standards, Spatio-temporal Modelling, kinetic modelling, Biophysics

Tools: Copasi, SED-ML, Bifurcation analysis, Cytoscape, Morpheus, Multiscale simulation, SBML, Stability analysis

No description specified

Matthias König

Projects: LiSyM PALs, Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF), Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV), LiSyM network

Institutions: Humboldt-Universität zu Berlin - Institute for Theoretical Biology (ITB)

orcid.org/0000-0003-1725-179X

Disciplines: Modeller, Bioinformatician

Roles: Project Coordinator

Expertise: computational modelling, metabolic networks, computational biology, kinetic modelling

Tools: SED-ML, FBA, ODE, SBML, Cytoscape

We are investigating liver metabolism and function with the help of computational models and methods.
Read more about the LiSyM junior group at: www.livermetabolism.com

Junior Group Leader
Dr. Matthias König

Institute for Theoretical Biology
Humboldt-University Berlin
Invalidenstraße 43, 10117 Berlin, Germany
phone +49 30 2093-8450
konigmatt@googlemail.com

The liver is the central metabolic organ of our body playing a crucial role in the clearance of drugs, xenobiotics and numerous metabolites
...

A brief history of COMBINE

LiSyM Core Infrastructure and Management (LiSyM-PD), LiSyM network

Abstract (Expand)

Standards for data exchange are critical to the development of any field. They enable researchers and practitioners to transport information reliably, to apply a variety of tools to their problems, and ...

Authors: Martin Golebiewski, Myers Chris J.,Bader Gary,Gleeson Padraig,Hucka Michael,Le Novere Nicolas,Nickerson David P.,Schreiber Falk,Waltemath Dagmar

Date Published: 1st Dec 2017

Journal: 2017 Winter Simulation Conference (WSC)

DOI: 10.1109/WSC.2017.8247840

Citation: A brief history of COMBINE : 884

Created: 29th Jan 2018 at 15:54, Last updated: 29th Jan 2018 at 15:56

pSSAlib: The partial-propensity stochastic chemical network simulator

Early Metabolic Injury (LiSyM-EMI - Pillar I)

Abstract (Expand)

Chemical reaction networks are ubiquitous in biology, and their dynamics is fundamentally stochastic. Here, we present the software library pSSAlib, which provides a complete and concise implementation ...

Authors: Lutz Brusch, Ostrenko Oleksandr,Incardona Pietro,Ramaswamy Rajesh,Sbalzarini Ivo F.

Date Published: 4th Dec 2017

Journal: PLoS Comput Biol

DOI: 10.1371/journal.pcbi.1005865

Citation: PLoS Comput Biol 13(12) : e1005865

Created: 19th Dec 2017 at 15:19, Last updated: 19th Dec 2017 at 15:21

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016

LiSyM Core Infrastructure and Management (LiSyM-PD)

Abstract (Expand)

Standards are essential to the advancement of science and technology. In systems and synthetic biology, numerous standards and associated tools have been developed over the last 16 years. This special ...

Authors: Martin Golebiewski, Schreiber F.,Bader G. D.,Gleeson P.,Hucka M.,Le Novere N.,Myers C.,Nickerson D.,Sommer B.,Walthemath D.

Date Published: 12th Feb 2017

Journal: J Integr Bioinform

PubMed ID: 28187405

Citation: J Integr Bioinform. 2016 Dec 18;13(3):289. doi: 10.2390/biecoll-jib-2016-289.

Created: 21st Feb 2017 at 17:14