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AM> I have been unable to find any way of using delayed
AM> variables in SBML (although I am aware that SBML Level
AM> 2 does define support for events which happen with a
AM> time delay, a rather different concept).

SBML Level 2 provides for delay functions via the mechanism
of the MathML csymbol. See section 3.4.6 in the L2v3
specifications (p.24 specifically in the L2v3r2 document).

But I think what the original poster was asking when they wrote

>>>> I am wondering if you have any idea which tool can
>>>> handle the time delay term.

is for a software tool that could actually *simulate* a
model that uses the delay function. There are very few
(that I'm aware of). XPP is one; MathSBML another; SBML ODE
Solver (the CVS'ed version, not the public release) is
supposed to, but it's actually a bit unreliable in that
area; SimBiology probably does too but I can't check right
now.

MH

--
Mike Hucka, Ph.D. mhucka at caltech.edu http://bnmc.caltech.edu
Senior Research Fellow, Control and Dynamical Systems
Co-director, Biological Network Modeling Center (BNMC)
Beckman Institute @ the California Institute of Technology

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• [cellml-discussion] Time delays in CellML models, Catherine Lloyd, 02/13/2008
  • [cellml-discussion] Time delays in CellML models, Matt, 02/13/2008
  • [cellml-discussion] Time delays in CellML models, Andrew Miller, 02/13/2008
    • [cellml-discussion] Time delays in CellML models, Rui Zhu, 02/13/2008
    • [cellml-discussion] Time delays in CellML models, Michael Hucka, 02/13/2008
    • [cellml-discussion] Time delays in CellML models, Nicolas Le novère, 02/18/2008
  • [cellml-discussion] Time delays in CellML models, Randall Britten, 02/13/2008

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