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Re: Surveillance Epidemiology and End Results (SEER)

From: Daniel Rubin <rubin@med.stanford.edu>
Date: Thu, 04 Oct 2007 21:08:57 -0700
Message-Id: <6.2.5.6.2.20071004210754.04f39288@med.stanford.edu>
To: Matt Williams <matthew.williams@cancer.org.uk>, Susie Stephens <susie.stephens@gmail.com>
Cc: public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>

Sure, I could start taking a look at SEER if you want to start 
looking at ADNI...
Daniel

At 02:23 PM 10/4/2007, Matt Williams wrote:

>If work goes well tomorrow, perhaps.
>
>Else perhaps Monday pm.
>
>Daniel - can we divide this sensibly?
>
>Matt
>
>Susie Stephens wrote:
>>Hi Matt, Daniel,
>>
>>It would be great if you were able to write a brief description of 
>>the data set, list the terms that are used, and also provide some 
>>information as to how the data is currently used.
>>
>>Would it be realistic for either of you to get that done by Monday?
>>
>>Cheers,
>>Susie
>>
>>
>>On 10/4/07, *Daniel Rubin* <rubin@med.stanford.edu 
>><mailto:rubin@med.stanford.edu>> wrote:
>>     I might be able to help look as some of these data, depending on
>>     what specifically is expected for this task.
>>     Regards,
>>     Daniel
>>     ___
>>     Daniel Rubin, MD, MS
>>     Clinical Asst. Professor, Radiology
>>     Research Scientist, Stanford Medical Informatics
>>     Scientific Director, National Center of Biomedical Ontology
>>     MSOB X-215
>>     Stanford, CA 94305
>>     650-725-5693
>>
>>
>>     At 09:16 AM 10/4/2007, Susie Stephens wrote:
>>>     Assessing clinical data sets for incorporation into our work
>>>     sounds like an excellent idea. I'll add that as an agenda item for
>>>     Monday's BioRDF call as suggested by EricN.
>>>
>>>     It would be wonderful is someone wants to volunteer to take a look
>>>     at the cancer data set that Alan uncovered (
>>>     <http://seer.cancer.gov/data/> http://seer.cancer.gov/data/). If
>>>     someone has the bandwidth by Monday then that would be great, but
>>>     providing feedback the week after would also be excellent.
>>>
>>>     Another data set that I think is interesting is the one being
>>>     developed by the Alzheimers Disease NeuroImaging Initiative (
>>>     http://www.loni.ucla.edu/ADNI/). This is an open data set that
>>>     includes serial magnetic resonance imaging (MRI), positron
>>>     emission tomography (PET), other biological markers, and clinical
>>>     and neuropsychological assessment data. The goal of the data is to
>>>     use it to learn about the progression of mild cognitive impairment
>>>     and early Alzheimer's disease. I'm definitely going to be
>>>     exploring this data further, but I'd be more than happy for other
>>>     folks to take a look at it too.
>>>
>>>     Cheers,
>>>
>>>     Susie
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>     On 10/4/07, *Eric Neumann* <eneumann@teranode.com
>>>     <mailto:eneumann@teranode.com>> wrote:
>>>
>>>
>>>         Indeed this would be an interesting set to rdf-ize. It might
>>>         also be interesting based on the dataset complexity (i.e.,
>>>         moderate complexity) to see what practical stratgey for RDF
>>>         conversion one would choose.
>>>
>>>         http://seer.cancer.gov/data/
>>>
>>>         Perhaps a few folks could look at this data structure,
>>>         consider some approaches ( e.g., RDF-Schema only vs. a minimal
>>>         ontology), and discuss this on the next BioRDF call?
>>>
>>>         Eric
>>>
>>>
>>>
>>>         -----Original Message-----
>>>         From: public-semweb-lifesci-request@w3.org
>>>         <mailto:public-semweb-lifesci-request@w3.org> on behalf of
>>>         Alan Ruttenberg
>>>         Sent: Wed 10/3/2007 1:07 AM
>>>         To: public-semweb-lifesci hcls
>>>         Subject: Surveillance Epidemiology and End Results (SEER)
>>>
>>>
>>>         At a talk I attended today, this resource of patient cancer
>>>         diagnoses         was mentioned as an example of publicly 
>>> available clinical
>>>         data. A
>>>         quick look over the documentation suggests it might be an
>>>         interesting
>>>         project to produce an RDF version of the data set.
>>>
>>>         http://seer.cancer.gov/data/
>>>
>>>         The SEER limited-use data* include SEER incidence and
>>>         population data
>>>         associated by age, sex, race, year of diagnosis, and
>>>         geographic areas
>>>         (including SEER registry and county)
>>>
>>>         -Alan
>>>
>>>
>
>--
>http://acl.icnet.uk/~mw
>http://adhominem.blogsome.com/
>+44 (0)7834 899570
Received on Friday, 5 October 2007 04:09:09 GMT

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