Re: BioRDF [Telcon]

Hi All,

I tried to call the BioRDF conference, but I kept getting the message 
saying my access code "246733" was incorrect.

Thanks,

-Kei

William Bug wrote:

> Hi All,
>
> Here is one Use Case to review for today thanks to the efforts of my 
> colleagues on the BIRN Ontology Task Force, Maryann Martone and 
> Jessica Turner. It is representative of the low-hanging fruit approach 
> we are taking - one where minimal ontology-based annotation on large 
> data sets using a semantic framework covering specific neuroscience 
> domains will help us to progressively add more utility to the BIRN 
> infrastructure appropriate to meet the needs of the broadest range of 
> neuroscientists.  This is also a neuroimaging Use Case, so it should 
> dovetail nicely with the discussion Daniel Rubin will be leading.
>
> There are a considerable collection of Use Cases covering a wider 
> range of topics from molecular data in mouse models to clinical 
> assessments which we (the BIRN OTF) are now proceeding through to 
> provide a sufficient amount of detail so as to help us more clearly 
> define our semantic infrastructural requirements.  I'll send more of 
> these around later as they become available.
>
> Cheers,
> Bill
>
>
> *BIRN Use Case #1:**  **Locating specific types of functional 
> neuroimaging data sets through the BIRN infrastructure*
> A researcher wants to examine all fMRI datasets where the subject is 
> given a working memory task.  Through the simple web interface, the 
> user enters “fMRI data and working memory task”.   The BIRN mediator 
> searches the BIRNLex lexicon+ontology framework to find those 
> behavioral paradigms listed under working memory tasks.  The mediator 
> then dispatches a distributed query to those data repositories which 
> have been registered to it in search of fMRI data where subjects have 
> been administered these tasks.  In order to understand the results in 
> context, the web interface provides the relevant portion of the 
> hierarchy and indexes each result to the relevant term. 
>  
> The  mediator in this case performs two essential functions:  1)  it 
> allows a query to be issued across multiple data resources without the 
> need to query each one separately;  2)  it utilizes the knowledge 
> contained in BIRNLex to expand the query beyond the specified term to 
> find data that is relevant to the query. 
>  
> This use case requires a level of deeper integration than simple 
> keyword indexing of data sources can provide, because the user is 
> asking for only those scans from subjects that were given a working 
> memory test.   Simple keyword descriptions of a resource do not 
> provide adequate information for performing this type of query.  For 
> example, the current description of the data content of the fMRI Data 
> Center (www.fmridc.org <http://www.fmridc.org>) includes the following:
>
> anatomical / structural, behavioral.sensory performance.olfaction, 
> neuroimaging.functional 
>
> Keyword searching would be able to indicate the fMRI data center as 
> one resource that might have relevant data but would not be able to 
> return the specific data sets desired without the user performing an 
> additional query and sorting through the results, weeding out all the 
> false positives.  
>
> The goal of the BIRN Infrastructure in this context is to provide 
> enabling technology not only capable off-loading some of the more 
> simple semantically-driven tasks normally carried out by an expert 
> neuroscience investigator, but to also provide a general knowledge 
> supplement to cover those sub-domains a given neuroscientist may not 
> know in detail.  This example demonstrates both such forms of 
> cognitive augmentation.  In providing a semantic framework to describe 
> the general categories of behavioral protocol known to test working 
> memory, an investigator knowledgeable in that field is saved the often 
> tedious task of sorting through the results of a broad, keyword search 
> for */working memory/*, whereas one less familiar with the field is 
> able to identify the data sets of interest without prior knowledge of 
> the specific behavioral paradigm tests.  It also covers the fact many 
> data sets will be annotated with the specific behavioral paradigm with 
> no specific mention of */working memory/. *This works because the 
> identified data repositories have been annotated using BIRNLex *and 
> *the mediator is capable of using both the preferred terms and lexical 
> variants as well as the underlying semantic graph to more efficiently 
> identify the desired data sets.
>
>
> On Jan 5, 2007, at 2:02 PM, Susie Stephens wrote:
>
>>
>> Here's a reminder for Monday's BioRDF call.
>>
>> Date of Call: Monday January 8, 2007
>> Time of Call: 11:00am Eastern Time
>> Dial-In #: +1.617.761.6200 (Cambridge, MA)
>> Participant Access Code: 246733 ("BIORDF")
>> IRC Channel: irc.w3.org port 6665 channel #BioRDF
>> Duration: ~1 hour
>>
>> Agenda
>> - Review action items.
>> - Kei Cheung will provide a status update regarding the BMC 
>> Bioinformatics paper.
>> - Daniel Rubin will highlight the use of images within scientific 
>> queries.
>> - Bill Bug will describe some of the most appropriate use cases from 
>> BIRN.
>> - Finalize decisions regarding the best venue for the demo.
>> - AOB.
>>
>>
>>
>
> Bill Bug
> Senior Research Analyst/Ontological Engineer
>
> Laboratory for Bioimaging  & Anatomical Informatics
> www.neuroterrain.org
> Department of Neurobiology & Anatomy
> Drexel University College of Medicine
> 2900 Queen Lane
> Philadelphia, PA    19129
> 215 991 8430 (ph)
> 610 457 0443 (mobile)
> 215 843 9367 (fax)
>
>
> Please Note: I now have a new email - William.Bug@DrexelMed.edu 
> <mailto:William.Bug@DrexelMed.edu>
>
>
>
>

Received on Monday, 8 January 2007 16:08:57 UTC