Team:Newcastle/CellML

From 2009.igem.org

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= CellML =
= CellML =
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'''CellML''' is a language which stores and exchanges computer-based mathematical models. It is an open standard based on the XML markup language, and is being developed by the Auckland Bioengineering Institute at the University of Auckland.
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[[Image:Logo-cellml.png|128px|right]]
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[[Image:COR logo.png|128px|right]]
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[[Image:OpenCell logo.png|128px|right]]
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'''CellML''' is a language which stores and exchanges computer-based mathematical models. It is an open standard based on the XML markup language, and is being developed by the Auckland Bioengineering Institute at the University of Auckland. To develop models in CellML we used the COR and OpenCell programs.
The Newcastle team used CellML for their Gold award winning project last year, so we have decided to once again use this technology.
The Newcastle team used CellML for their Gold award winning project last year, so we have decided to once again use this technology.
== JSim ==
== JSim ==
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[[Image:Jsimlogo doc.gif|128px|right]]
To bridge the gap between agent based models (Java) and cellular models (CellML), the Newcastle team are using a software product called JSim, developed by the University of Washington.
To bridge the gap between agent based models (Java) and cellular models (CellML), the Newcastle team are using a software product called JSim, developed by the University of Washington.
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** [http://www.cellml.org/about/news/newcastle-university-team-wins-gold-in-igem-synthetic-biology-competition-cellml-technology-plays-important-role An article about last year's CellML usage]
** [http://www.cellml.org/about/news/newcastle-university-team-wins-gold-in-igem-synthetic-biology-competition-cellml-technology-plays-important-role An article about last year's CellML usage]
* [http://nsr.bioeng.washington.edu/jsim/ JSim]
* [http://nsr.bioeng.washington.edu/jsim/ JSim]
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* [http://cor.physiol.ox.ac.uk/ COR]
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* [http://www.cellml.org/tools/opencell/ OpenCell]
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Latest revision as of 12:03, 21 October 2009

Contents

CellML

Logo-cellml.png
COR logo.png
OpenCell logo.png

CellML is a language which stores and exchanges computer-based mathematical models. It is an open standard based on the XML markup language, and is being developed by the Auckland Bioengineering Institute at the University of Auckland. To develop models in CellML we used the COR and OpenCell programs.

The Newcastle team used CellML for their Gold award winning project last year, so we have decided to once again use this technology.

JSim

Jsimlogo doc.gif

To bridge the gap between agent based models (Java) and cellular models (CellML), the Newcastle team are using a software product called JSim, developed by the University of Washington.

Models developed

The following are models which we have developed using CellML:

In addition to CellML, JSim has been used to access models written in CellML in:

External links

  • [http://www.cellml.org/ CellML.org]
    • [http://www.cellml.org/about/news/newcastle-university-team-wins-gold-in-igem-synthetic-biology-competition-cellml-technology-plays-important-role An article about last year's CellML usage]
  • [http://nsr.bioeng.washington.edu/jsim/ JSim]
  • [http://cor.physiol.ox.ac.uk/ COR]
  • [http://www.cellml.org/tools/opencell/ OpenCell]



News

Events

Social Net

  • Newcastle iGEM Twitter
  • [http://www.facebook.com/home.php#/group.php?gid=131709337641 Newcastle on Facebook]
  • [http://www.youtube.com/user/newcastle2009igem Newcastle Youtube Channel]
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