Models

 

Kformula A community-driven global reconstruction of human metabolism.


Uploader: Martin Golebiewski

Contributor: Andreas Hoppe, Christian Bölling, Nicolas Le Novère

Other contributors: Not specified

Model type: Not specified

Model format: SBML

Version: 1

Projects: A: Cellular level, HepatoSys, Virtual Liver

Organism: Homo sapiens

Environment: Not specified

Scales: Cell

Multiple models of human metabolism have been reconstructed, but each represents only a subset of our knowledge. Here we describe Recon 2, a community-driven, consensus 'metabolic reconstruction', which is the most comprehensive representation of human metabolism that is applicable to computational modeling. Compared with its predecessors, the reconstruction has improved topological and functional features, including ∼2× more reactions and ∼1.7× more unique metabolites. Using Recon 2 we predicted
...

Created: 27th Nov 2013 at 10:35


 

Kformula A Conceptual Mathematical Model of the Dynamic Self-Organisation of Distinct Cellular Organelles


Uploader: Bernd Binder

Contributor: Bernd Binder, Hermann-Georg Holzhütter, Nikolaus Berndt

Other contributors: Not specified

Model type: Ordinary differential equations (ODE)

Model format: Not specified

Version: 1

Projects: A3.3: Hepatocyte polarity

Organism: Not specified

Environment: Not specified

Scales: Cell

Formation, degradation and renewal of cellular organelles is a dynamic process based on permanent budding, fusion and inter-organelle traffic of vesicles.

Created: 30th Jan 2014 at 11:07   Last updated: 30th Jan 2014 at 11:07


 

Kformula A description of a detailed ordinary differential equation (ODE) model of Wnt/β-catenin signalling


Uploader: Iryna Ilkavets

Contributor: Andreas Hecht

Other contributors: Not specified

Model type: Ordinary differential equations (ODE)

Model format: PDF (Model description)

Scales: Cell

It is a link to a supplementary information from a publication: Benary, U., Kofahl, B., Hecht, A. and Wolf, J. (2015), Mathematical modelling suggests a differential impact of β-transducin repeat-containing protein paralogues on Wnt/β-catenin signalling dynamics. FEBS Journal, 282: 1080–1096. doi: 10.1111/febs.13204

http://onlinelibrary.wiley.com/doi/10.1111/febs.13204/suppinfo

The Wnt/β-catenin signalling pathway is involved in the regulation of a multitude of cellular processes by controlling
...

Created: 15th Jun 2015 at 13:22   Last updated: 15th Jun 2015 at 14:19


 

Kformula A hypothetical model of cargo-selective rab recruitment during organelle maturation.


Uploader: Bernd Binder

Contributor: Bernd Binder

Other contributors: Not specified

Model type: Ordinary differential equations (ODE)

Model format: Not specified

Version: 1

Projects: A3.3: Hepatocyte polarity

Organism: Not specified

Environment: Not specified

Scales: Not specified

Rabs constitute a group of small GTPases that confer directionality to intracellular vesicle transport by promoting on the membrane of transport vesicles in the formation of specific protein complexes allowing for efficient fusion with a selected set of target organelles. The molecular mechanism controlling recruitment of the correct Rab at the right time is not fully understood. We propose a model according to which the residence time of a given Rab on the membrane of an organelle is determined
...

Created: 30th Jan 2014 at 11:17   Last updated: 30th Jan 2014 at 11:17


 

Kformula AminoAcidMetabolism_Liver


Uploader: Data From HepatoSys

Contributor: Data From HepatoSys, Reinhard Guthke, Rolf Gebhardt, Sebastian Zellmer, Wolfgang Schmidt-Heck

Other contributors: H. Buentemeyer, D. Teupser, J. Thiery

Model type: Not specified

Model format: SBML

Version: 1

Projects: HepatoSys

Organism: Mus musculus

Environment: Not specified

Scales: Cell

amino acid metabolism of cultured mouse hepatocytes

Created: 25th Jul 2011 at 15:09   Last updated: 24th Feb 2012 at 15:26



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