Virtual Liver SEEK

7 items tagged with 'logical modelling'.

Publications (6)

Coordinating Role of RXRα in Downregulating Hepatic Detoxification during Inflammation Revealed by Fuzzy-Logic Modeling

Authors: Roland Keller, Marcus Klein, Maria Thomas, Andreas Dräger, Ute Metzger, Markus F. Templin, Thomas O. Joos, Wolfgang E. Thasler, Andreas Zell, Ulrich M. Zanger

DOI: 10.1371/journal.pcbi.1004431

Date Published: 4th Jan 2016

Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes

Journal: PLoS Comput Biol

Citation: PLoS Comput Biol 12(1) : e1004431

Scales: Cell

Abstract (Expand)

During various inflammatory processes circulating cytokines including IL-6, IL-1β, and TNFα elicit a broad and clinically relevant impairment of hepatic detoxification that is based on the downregulation ...

Created: 7th Jan 2016 at 15:20 Last updated: 7th Jan 2016 at 15:24

SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools

Authors: Claudine Chaouiya, Duncan Berenguier, Sarah M Keating, Aurelien Naldi, Martijn P van Iersel, Nicolas Rodriguez, Andreas Dräger, Finja Büchel, Thomas Cokelaer, Bryan Kowal, Benjamin Wicks, Emanuel Gonçalves, Julien Dorier, Michel Page, Pedro T Monteiro, Axel von Kamp, Ioannis Xenarios, Hidde de Jong, Michael Hucka, Steffen Klamt, Denis Thieffry, Nicolas Le Novère, Julio Saez-Rodriguez, Tomá¿ Helikar

DOI: 10.1186/1752-0509-7-135

Date Published: 2013

Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes

Journal: BMC Syst Biol

Citation: BMC Syst Biol 7(1) : 135

Scales: Cell and Intercellular

Abstract (Expand)

Background Qualitative frameworks, especially those based on the logical discrete formalism, are increasingly used to model regulatory and signalling networks. A major advantage of these frameworks is ...

Created: 10th Dec 2013 at 18:07 Last updated: 10th Dec 2013 at 18:09

Path2Models: large-scale generation of computational models from biochemical pathway maps

Authors: Finja Büchel, Nicolas Rodriguez, Neil Swainston, Clemens Wrzodek, Tobias Czauderna, Roland Keller, Florian Mittag, Michael Schubert, Mihai Glont, Martin Golebiewski, Martijn van Iersel, Sarah Keating, Matthias Rall, Michael Wybrow, Henning Hermjakob, Michael Hucka, Douglas B Kell, Wolfgang Müller, Pedro Mendes, Andreas Zell, Claudine Chaouiya, Julio Saez-Rodriguez, Falk Schreiber, Camille Laibe, Andreas Dräger, Nicolas Le Novère

DOI: 10.1186/1752-0509-7-116

Date Published: 2013

Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes

Journal: BMC Syst Biol

Citation: BMC Syst Biol 7(1) : 116

Scales: Cell and Intercellular

Abstract (Expand)

Background Systems biology projects and omics technologies have led to a growing number of biochemical pathway models and reconstructions. However, the majority of these models are still created de ...

Created: 4th Nov 2013 at 16:48 Last updated: 4th Nov 2013 at 16:54

Precise generation of systems biology models from KEGG pathways

Authors: Clemens Wrzodek, Finja Büchel, Manuel Ruff, Andreas Dräger, Andreas Zell

DOI: 10.1186/1752-0509-7-15

Date Published: 2013

Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes

Journal: BMC Syst Biol

Citation: BMC Syst Biol 7(1) : 15

Scales: Cell and Intercellular

Abstract (Expand)

Background: The KEGG PATHWAY database provides a plethora of pathways for a diversity of organisms. All pathway components are directly linked to other KEGG databases, such as KEGG COMPOUND or KEGG ...

Created: 23rd Feb 2013 at 23:19 Last updated: 24th Oct 2013 at 16:15

Systems Biology of Cell Death in Hepatocytes

Authors: Rebekka Schlatter, Kathrin Schmich, Christoph Borner, Michael Ederer, Irmgard Merfort

DOI: 10.1007/978-1-4614-4009-3_5

Date Published: 2013

Projects: A2.2: Regulation of pro-apoptotic and anti-apoptotic responses in hepato..., Showcase LPS and Inflammation

Book: Systems Biology of Apoptosis

Citation: Systems Biology of Apoptosis : 101

Scales: Cell

Abstract (Expand)

The processes of liver regeneration and liver disease are regulated by a complex network of soluble and cell-associated apoptotic and inflammatory signals. To obtain insights into the mechanistic ...

Created: 7th Oct 2012 at 15:22 Last updated: 23rd Jul 2015 at 13:38

Large-scale network models of IL-1 and IL-6 signalling and their hepatocellular specification

Authors: Anke Ryll, Regina Samaga, Fred Schaper, Leonidas G Alexopoulos, Steffen Klamt

PubMed ID: 21968890

Date Published: 5th Oct 2011

Projects: A2.5: Integration of insulin and Wnt signalling in hepatocytes, A3.4: Linking signalling to metabolic functions, A3.6: Transcription factor network and links to metabolism in NAFLD, Interleukin-6 signalling

Journal: Not specified

Citation: Mol Biosyst 7(12): 3253-70

Scales: Cell

Abstract (Expand)

The pro-inflammatory cytokines interleukin 1 (IL-1) and 6 (IL-6) are crucially involved in the regulation of a multitude of physiological processes, in particular coordinating the immune response upon ...

Created: 8th Nov 2011 at 09:14 Last updated: 24th Oct 2013 at 16:17