Models

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388 Models visible to you, out of a total of 628

Originally submitted model file for PLaSMo accession ID PLM_41, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_32, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_40, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_38, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_39, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_36, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_37, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_34, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_35, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_12, version 1

Creators: BioData SynthSys, Robert Muetzelfeldt

Submitter: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_33, version 1

Creators: BioData SynthSys, Chris Davey

Submitter: BioData SynthSys

Here is a kinetic model (in COPASI format) of L. lactis glycolysis.

Creator: Mark Musters

Submitter: Mark Musters

Butanol producing iNS142, redesigned using RobOKoD.

Creator: Natalie Stanford

Submitter: Natalie Stanford

This record includes Matlab and Simile format versions of the Arabidopsis Framework Model version 1, FMv1 (Chew et al, PNAS 2014; http://www.pnas.org/content/early/2014/08/27/1410238111), copied from the PlaSMo resource (www.plasmo.ed.ac.uk), PLM_ID=76. The model description is in the Supplementary Materials of the publication, which should be uploaded somewhere here also but I don't see how to do it.

The FMv1 links the following sub-models:

  1. Arabidopsis leaf carbohydrate model (Rasse and ...

Creators: Andrew Millar, Yin Hoon Chew

Submitter: Andrew Millar

No description specified

Creator: Jacky Snoep

Submitter: Jacky Snoep

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

This model describes a core process during endocytosis. Intracellular vesicles called early endosomes contain the endocytosed cargo, e.g. signaling components like growth factors and RTKs, pathogens like viruses and nutrients like iron in transferrin. Early endosomes form an interacting pool of thousands of vesicles and jointly constitute the sorting and transport machinery in the endocytic pathway. Together with the cargo, membrane components travel to other compartments of the pathway which ...

Creator: Lutz Brusch

Submitter: Lutz Brusch

The model is adapted from A.P. Kupinski, I. Raabe, M. Michel, D. Ail, L. Brusch, T. Weidemann, C. Bökel (2013) Phosphorylation of the Smo tail is controlled by membrane localization and is dispensable for clustering, J. Cell Sci., 126, 20, 4684-4697 doi: 10.1242/​jcs.128926

The model format is MorpheusML that can readily be loaded and run in Morpheus: https://imc.zih.tu-dresden.de//wiki/morpheus

Creator: Lutz Brusch

Submitter: Lutz Brusch

Morpheus is the modelling and simulation framework for multicellular systems biology developed at Technische Universität Dresden. Manual, examples and binaries for Windows, Linux, MacOS at: https://imc.zih.tu-dresden.de/wiki/morpheus Open source code at: https://gitlab.com/morpheus.lab/morpheus

Creators: Lutz Brusch, Jörn Starruß, Walter de Back, Andreas Deutsch

Submitter: Lutz Brusch

Exactly the same as model 243, but uploaded as a file rather than copied from PlaSMo.

Creator: Andrew Millar

Submitter: Andrew Millar

This version is P2011.1.2, model ID PLM_71 version 1. Dynamics identical to P2011.1.1 of the Pokhilko et al. 2012 publication.

http://www.plasmo.ed.ac.uk/plasmo/models/download.shtml?accession=PLM_71&version=1

Python scripts to run the analysis estimating rates of protein synthesis in the light and dark, and overall rates of protein turnover, in Cyanothece and Ostrecoccus tauri.

Creators: Daniel Seaton, Andrew Millar

Submitter: Daniel Seaton

No description specified

Creator: Daniel Seaton

Submitter: Daniel Seaton

This mechanistic ODE model describes the growth dynamics of P. aeruginosa, including an antibiotic-induced morphological transition to a fragile spherical form.

Creators: Chloe Spalding, Sara Jabbari

Submitter: Chloe Spalding

PGK-GAPDH model Sulfolobus kouril8

Creator: Jacky Snoep

Submitter: Jacky Snoep

PGK-GAPDH model yeast kouril7

Creator: Jacky Snoep

Submitter: Jacky Snoep

PGK-GAPDH models yeast and Sulfolobus Fig. 4 in manuscript

Creator: Jacky Snoep

Submitter: Jacky Snoep

PGK 70C SBML

Creator: Jacky Snoep

Submitter: Jacky Snoep

PGK yeast Fig1a

Creator: Jacky Snoep

Submitter: Jacky Snoep

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