Re: DSE TC, Friday May 25

Hi Stephen,

Glad you like Exhibit! Could you show me how you want those hierarchical 
views to look/behave like? I'm not versed in the particulars of your 
data domain.

Thanks,

David

Dobson, Stephen wrote:
>
> I love it.
>
> Yes it won’t take the full set of data I’m just creating a smaller 
> subpopulation to make it work. Thanks for the dates thing, hadn’t 
> worked that out.
>
>
> Sure. I can generate a SAS file with some metabolizing enzyme 
> polymorphisms very easily and see if that can link in.
>
> I’d love some sort of quick hierarchical viewing mechanism if that’s 
> possible.
>
> Similar to how the NCBO’s bioportal works. It would be great for 
> viewing things like the meddra hierarchy, organizational charts, 
> multidimensional information. I’m forever creating mindmaps to demo 
> little bits of this type of hierarchical data.
>
> Cheers
>
>
> Stephen.
>
> ------------------------------------------------------------------------
>
> *From:* Eric Neumann [mailto:eneumann@teranode.com]
> *Sent:* Friday, May 25, 2007 4:44 PM
> *To:* Dobson, Stephen; Forsberg, Kerstin L; public-hcls-dse@w3.org
> *Cc:* dfhuynh@csail.mit.edu; karger@mit.edu
> *Subject:* RE: DSE TC, Friday May 25
>
> Stephen,
>
> I was amazed how large the treament.xls file was, and so when I passed 
> it to Babel with the other 3, it choked... happy to hear you managed 
> to make it work. Please append it to the DSE site.
>
> Some Babel tips:
>
> - make sure the main row item ID is in the first column, then babel 
> will construct a URI for it (extra property).
>
> - additional entity ID's (linker columns), need a URI to be generated 
> manually (I believe), but will still use these local IDs as cross 
> linkers if they have the same prop name in other files: e.g., AE_ID
>
> - append a ':url' after a attribute (column) name if you wish it to be 
> used as a URI
>
> - other data types can be appended to column names to help Babel (like 
> :item)
>
> - object types can also be assigned (People, Events, etc) by adding a 
> 'type' column
>
> - dates should by in the ISO 8601 format (yyy-mm-dd)
>
> If we can get all 4 files together correctly, building viewers should 
> be easy.... should we try this also for some simple SAS tables?
>
> I am working with the MIT researchers (David Karger and David Hyunh 
> have been copied on this email;) to identify possible future features 
> in Exhibit that we would find useful-- please pass along any general 
> recommendations!
>
> Eric
>
>
>
> -----Original Message-----
> From: Dobson, Stephen [mailto:Stephen.Dobson@pfizer.com]
> Sent: Fri 5/25/2007 4:18 PM
> To: Forsberg, Kerstin L; Eric Neumann; public-hcls-dse@w3.org
> Subject: FW: DSE TC, Friday May 25
>
> Hi all,
>
>
>
> The Exhibit system provides a great way of visualizing the tools.
>
>
>
> Based on our conversation today am I right in thinking that this system
> should "know" how to join data from multiple spreadsheets based on the
> same URI's. It looks like it has managed it for the AE's and demography
> in the demonstration Eric provided. Eric I assume you joined both these
> datasets together simply by loading into bable?
>
>
>
> I've managed to join treatment, demog and vitals together in the same
> way. It took me a while to work out you needed a unique record
> identifier (e.g. vt_1, similar to Eric's AE_1) but after I discovered
> that it works great. I need to greatly reduce the spreadsheet to have
> any hope of visualizing through the JSON file though.
>
>
>
> I imagine we could eventually have applications where data could be
> dragged and dropped and based on the URI's the system would know how to
> join the data and what visualizations could be performed. This would
> be really nice.
>
>
>
> Cheers
>
> Stephen.
>
>
>
>
>
> ________________________________
>
> From: public-hcls-dse-request@w3.org
> [mailto:public-hcls-dse-request@w3.org] On Behalf Of Forsberg, Kerstin L
> Sent: Friday, May 25, 2007 8:15 AM
> To: Eric Neumann; public-hcls-dse@w3.org
> Subject: RE: DSE TC, Friday May 25
>
>
>
> Hi Eric,
>
> looks like we have a lot of interesting stuff to cover!
>
>
>
> I have been playing around with the Exhibit viewer and JSON data. Great
> stuff!!!
>
>
>
> I would like us to have a discussions around what "web of data"
> considerations that needs to made/applied to really make this the killer
> app. That is, what we should consider in the process of taking data from
> existing sources such as SAS/Excel datasets, rendering them as instances
> of common entities (observations), enriching them by assigning URI:s and
> annotating them using different ontologies, before making up the JSON
> files
>
>
>
> Talk to you soon
>
> Cheers Kerstin
>
> -----Original Message-----
> From: public-hcls-dse-request@w3.org
> [mailto:public-hcls-dse-request@w3.org]On Behalf Of Eric Neumann
> Sent: 25 maj 2007 03:08
> To: public-hcls-dse@w3.org
> Subject: DSE TC, Friday May 25
>
>
>
> SW-HCLS(DSE) Friday, May 25, 8:30am-9:30am/13:30-14:30 UTC
> for a duration of 1 hour
> Zakim Bridge +1.617.761.6200 <tel:+1.617.761.6200> , conference
> code
> 3731 ("DSE1")
> Coordinator: Eric Neumann <eneumann@teranode.com>
>
> Agenda:
> a) Roll call, minutes review
>
> b) Propose next DSE call June 8, 2007
>
> c) 'Brief' review of CTO workshop meetings - take away messages?
> - On a related point, paper from Kerstin on 'informatics and
> pharmacometrics': http://www.aapsj.org/view.asp?art=aapsj0901008
>
> d) Planning Preparation for DIA panel June 20
>
> e) SIMILE Exhibit viewing of SDTM data being constructed (see
> attachments); will this be appropriate for a SDTM+biomarker RDF demo?
>
> f) BioONT DSE DCM discussion; see
> http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM
>
> g) (if we have time) DSE paper: goals, (journal), content, and
> timing
>
>
> cheers,
> Eric
>
> ----------------------------------------------------------------------
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Received on Monday, 28 May 2007 01:54:07 UTC