Re: [Gmod-ajax] Simile::Timeline

[Chris M. <cj...@fr...>]

On Jan 27, 2007, at 3:33 PM, Hilmar Lapp wrote:

> SIMILE (http://simile.mit.edu) is a project MIT consisting of various
> subcomponents dealing with semantic interoperability and metadata.
>
> One of their AJAX/JavaScript-based applications, called Timeline,
> displays temporal data along time axes of different resolutions, and
> the horizontal panel can be smoothly dragged with the mouse, much
> like Google Maps. The time axes move along, with different velocities
> based on resolution. See http://simile.mit.edu/timeline/ and the
> examples linked from there.
>
> Obviously, I thought if you replace the time scales with genomic
> scales, and the temporal events with genomic features, you would
> pretty much have an AJAX-based genome browser.

The Simile group are producing some interesting applications.  
Timeline has some neat ideas for how we can do graphics, but we  
should also be looking to this group and others in the semantic web  
community for ideas about how to do mashups.

For example, Piggy Bank is a firefox plugin that extracts semantic  
content from web pages:
http://simile.mit.edu/wiki/Piggy_Bank

For example: your doing some history research on wikipedia - you  
bookmark semantic content as you go along, then you can browse this  
in piggybank and show the events you've select on a Timeline. Or see  
the spatial projection on google maps. It's pro-active mashups - why  
wait for some developer to create a mashup page for you, when you can  
do your own mashing?

The semantic content can be obtained by screenscraping (a bit messy),  
or, preferably, the developers can make their site semantic-web  
friendly and add links (hidden to the average user) to RDF metadata.

Let's have a look at some scenarios relevant to us:

Zipping along in gbrowse, the user bookmarks genes of interest. They  
then go over to AmiGO and perform a term enrichment analysis on their  
bookmarked genes against the GO database. No cut-n-paste required!  
Perhaps their analysis leads them to an interesting term like  
"regulation of photoreceptor development" - they can find genes  
annotated to this term, bookmark them, then show them in gbrowse.

All that is required is a trivial amount of data exposure as RDF and  
minimal coordination on use of URIs (much of what is already in  
place). I think some work still needs done on the tools side of  
things, but provision of the datasets will help complete the virtuous  
circle.

> Has anyone looked at this? Maybe some of the code there can be reused?
>
> Just an idea ...
>
> 	-hilmar
> -- 
> ===========================================================
> : Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
> ===========================================================
>
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