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Re: HCLS - visualization task force?

From: Jim McCusker <mccusj@rpi.edu>
Date: Mon, 19 Mar 2012 00:35:26 -0400
Message-ID: <CAAtgn=S20iEX78LDz=Yai78u0k4ENShWUaL3yAJr0sMCcHc96g@mail.gmail.com>
To: Michel Dumontier <michel.dumontier@gmail.com>
Cc: Jan Aerts <jan.aerts@esat.kuleuven.be>, public-semweb-lifesci@w3.org
All,

For various projects I've been working on a visualization for RDF graphs
based on UML instance diagrams. I've found that this convention, when
rendering something that actually fits (some graphs are way too big for a
fixed-size window) is a very readable and understandable convention for
displaying arbitrary RDF.

http://doppio.med.yale.edu/~jpm78/tw/rdfviewer/?url=http%3A%2F%2Fwww4.wiwiss.fu-berlin.de%2Fsider%2Fresource%2Fside_effects%2FC0035579

For some reason the base example isn't working at the moment, it doesn't
seem to be recognizing the mime type of the source document. But you should
be able to plug some RDF document URLs in, and it might actually work.

Jim

On Sun, Mar 18, 2012 at 1:07 PM, Michel Dumontier <
michel.dumontier@gmail.com> wrote:

>
>
> On Sun, Mar 18, 2012 at 9:03 AM, Jan Aerts <jan.aerts@esat.kuleuven.be>wrote:
>
>> Hey Mark,
>>
>> I totally agree: showing RDF data in its full granularity will not work.
>> I had a chat with Katayama yesterday (is on holiday in Belgium), and he
>> mentioned something about your approach. It makes a lot of sense, and will
>> probably be the best way to bring this issue forward at this moment.
>>
>> In my lab, however, we have to look at dataviz from a more general
>> viewpoint as well. Although we are working on visualization of specific
>> types of data within a certain expert domain (i.c. genomics), many of our
>> projects need to be more on changing the state-of-the-art of data
>> visualization itself. For example: how do you visualize dynamic networks
>> (could be gene networks, could be social networks, ...). So what if we're
>> looking at RDF data that is not in a domain that already has a set of
>> standard visualizations available?
>>
>
> I would also challenge us to consider how, with this new modality, we can
> interactively, and dynamically search, explore, query and discover new
> information.  We have to do more than apply conventional visualizations.
>
>
>
>>
>> Within HCLS, I'd like to look at a hybrid between the two: we do have
>> some standard visualizations for certain types of data (e.g.
>> gbrowse-like-thing, heatmaps, ...) and should definitely work that out.
>>
>
> agree. i might suggest we focus on:
> - genome browsing
> - pathway dynamics
> - functional networks
>
> m.
>
>  But in addition, I'd like to look at it from a more general perspective
>> as well. I think these two could be completely complementary to each other.
>>
>> jan.
>>
>> ================================
>> Dr Jan Aerts
>> Assistant Professor
>> Faculty of Engineering - ESAT/SCD
>> Kasteelpark Arenberg 10 bus 2446
>> 3001 Leuven-Heverlee
>> Tel: +32 16 321053
>> Fax: +32 16 321970
>>
>
>
>
> --
> Michel Dumontier
> Associate Professor of Bioinformatics, Carleton University
> Visiting Associate Professor, Stanford University
> Chair, W3C Semantic Web for Health Care and the Life Sciences Interest
> Group
> http://dumontierlab.com
>
> --
> Jim McCusker
> Programmer Analyst
> Krauthammer Lab, Pathology Informatics
> Yale School of Medicine
> <http://dumontierlab.com>james.mccusker@yale.edu | (203) 785-6330
> http://krauthammerlab.med.yale.edu
>
> PhD Student
> Tetherless World Constellation
> Rensselaer Polytechnic Institute
> mccusj@cs.rpi.edu
> http://tw.rpi.edu
>
>
Received on Monday, 19 March 2012 04:36:18 GMT

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