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[cellml-discussion] PMR categories


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  • From: j.lawson at auckland.ac.nz (James Lawson)
  • Subject: [cellml-discussion] PMR categories
  • Date: Fri, 08 Jun 2007 13:27:00 +1200
Actually, I'd venture to say that the majority of them aren't models of
human biological systems. A lot of them are animal models or based on
experiments done in non-human cell lines (for example Xenopus oocytes
(frog) are commonplace for cell cycle experiments,) and there are also a
number of bacterial models.

I agree, I think the metadata field for species (a lot of the models
already have this, I think,) would be a useful value to sort by. Perhaps
this should be on the advanced search page rather than on the front
page, however.

Eventually, the plan is to be able to sort by pretty much any metadata
field that is contained in the models.

In the future, perhaps we'll actually have specific sections devoted to
particular species. For example, the nematode work Caenorhabditis
elegans has only ~1000 cells, and every single cell and its function has
been mapped. The C. elegans neural system in particular has been mapped
in a lot of detail, with work by White, Brenner et al. (1986) mapping
all the synaptic connections between all of the neurons. Although I
haven't checked, I imagine there are efforts to model the whole
organism. While this isn't a human physiome project, animal models like
this are really important in developing frameworks to use for
modelling/studying larger systems.

Randall Britten wrote:
> A separate phylogeny attribute is probably also needed.
>
> It is not clear whether all the models are meant to pertain to human
> physiology. One example certainly does not: "# Baylor, Hollingworth,
> Chandler, 2002, 'Comparison of Simulated and Measured Calcium Sparks
> in Intact Skeletal Muscle Fibers of the Frog'".
>
>
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