Re: Dec 14 HCLSIG TC Minutes

Hi Joanne,

I'll work with Alan and others based on your suggestions.

Thanks,

-Kei

Joanne Luciano wrote:

> Hi Kei,
>
> I made my edits on the google page this morning, so this becomes a  
> belated request for deadline extension.
>
> Included here:
>
> 1.3.2. Standards as Applications of Semantic Web Technologies (Joanne)
>
>
> There is a tacit assumption within the Semantic Web community that  
> every type of data sets and ontologies will be interoperable. The  
> reality is that a multitude of different conceptualisations and  
> formal representation of data exist. A key part of the Health and  
> Life Sciences SIG's vision is that standards need to be established  
> and accepted sufficiently widely within the community so as to allow  
> that necessary interoperability between data sets, application and  
> workflows. A relatively early effort in this direction was the BioPAX  
> initiative [REFS] which aimed to provide a common framework for the  
> disparate data sources and multiple conceptualisations of cellular  
> pathways. Its major success was in increasing public awareness and  
> persuading a community of researchers that the integration of data  
> was possible and would result in major research and discovery  
> advantages. It highlighted the multiple conceptualizations existing  
> within the domain of cellular pathways and made people aware of the  
> significant investment needed to achieve interoperability at not only  
> a syntactic level but also at a semantic one. A considered critique  
> of the effort with suggestions of the way forward is presented in  
> [REF to Luciano and Stevens] in this issue.
>
> In the medium term future, the efforts for standardization need a  
> much more careful analysis of the user requirements so as to be able  
> to get the end users (wet lab scientists) to buy into the approach  
> and its benefits. A greater understanding is needed both of the  
> conceptualisations needed which will be reflected in a number of  
> ontologies and the boundary which lies between what is possible and  
> useful in OWL based ontologies given the capabilities of the current  
> generation of reasoners, and on the other hand the ambitions and   
> needs of clinical researchers to integrate and interpret their data.
>
> The HCLSIG has an interesting role in the SW community because  
> potentially there is a far greater commitment to resourse curation  
> and the need for standard formats and data integration, thus making  
> it a much more likely candidate for being a poster child for the  
> success of Semantic Web technologies.
>
> Added to Section 2:
>
>
> The following figure shows the respective relationship between the  
> different task forces and their role in the bench to bedside vision.
>
>
> ------------------------------------------------------------------------
>
>
> and added my contributions to the section at the bottom:
>
>
> JL Joanne Luciano, Havard Medical School, Universtity of Manchester  
> (UK), BioPathways Consortium, BioPAX
>
> Affiliation:
>
> JL Joanne Luciano, Havard Medical School, Universtity of Manchester  
> (UK), BioPathways Consortium, BioPAX
>
> To Acknowledgment
>
> (after Kei's) JL was supported by NSF grant IIS-0542041.
>
> ---Joanne
>
>
> On Dec 15, 2006, at 10:58 AM, Kei Cheung wrote:
>
>>
>> Just want to add that the google doc editing deadline is 12:00 am  
>> (mid-night EST), Dec 15. If people still need a little bit more  
>> time, please let us know as soon as possible. We might be able to  
>> extend it to 12:00 noon, Saturday Dec 16 (but not anymore since the  
>> deadline is very close).
>>
>> Thanks,
>>
>> -Kei
>>
>> Alan Ruttenberg wrote:
>>
>>>
>>> Correction: Helen, Vipul will send whatever they haven't  
>>> integrated  into the googledoc to Alan over the weekend for  
>>> integration. Alan  will edit and send to Kei at weekend's end.
>>>
>>> -Alan
>>>
>>> On Dec 14, 2006, at 6:14 PM, Eric Neumann wrote:
>>>
>>>> [NEW] ACTION: Content will be moved off from googleDoc to Word  
>>>> COB  Dec 15; to be serially edited by Alan, Helen, Vipul, and  
>>>> returned  to Kei Dec 20. [recorded in http://www.w3.org/ 
>>>> 2006/12/14-hcls- minutes.html#action01 <http://www.w3.org/ 
>>>> 2006/12/14-hcls- minutes.html#action01> ]
>>>>
>>>
>>>
>>
>>
>>
>>
>
> Joanne Luciano, PhD
> Predictive Medicine, Inc.
> 45 Orchard Street
> Belmont MA 02478-3008
> Email: jluciano@predmed.com
>
>
>

Received on Sunday, 17 December 2006 19:56:52 UTC