Re: Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges

Hi All --

Here's another possible item for a cyberinfrastructure.

It's a kind of Wiki for content, written as syllogism-flavored rules, in
*executable* English.

It's live on the  Web, and shared use is free.

It also works as an SOA endpoint on the Web.

Here are some examples of a biological and workflow nature that you can
view, run and change, using a browser:

www.reengineeringllc.com/ibldrugdbdemo1.htm   (Flash video with audio)
www.reengineeringllc.com/demo_agents/HclsDrugDb1.agent

www.reengineeringllc.com/demo_agents/MedMine2.agent

www.reengineeringllc.com/demo_agents/GeneSequenceOntology3.agent

www.reengineeringllc.com/demo_agents/RDFQueryLangComparison1.agent

www.reengineeringllc.com/demo_agents/CriticalPath1.agent

www.reengineeringllc.com/demo_agents/ProcessSpecificationLanguage1.agent

Apologies if you have seen this before, and thanks for comments.

                                                    -- Adrian

Internet Business Logic
A Wiki and SOA Endpoint for Executable Open Vocabulary English over SQL and
RDF
Online at www.reengineeringllc.com    Shared use is free

Adrian Walker
Reengineering

On Wed, Aug 20, 2008 at 9:52 AM, Duncan Hull <duncan.hull@cs.man.ac.uk>wrote:

>
> Hello Kei
>
> Glad you liked the article.
>
> On 20 Aug 2008, at 14:27, Kei Cheung wrote:
>
>>
>>
>>> "To my knowledge, there is currently only one project that aims to bring
>>> the pure semantic web to biomedical research. That project is the Simple
>>> Semantic Web Architecture and Protocol (SSWAP30)"
>>>
>>> It's nice that Nature allows the community to add descriptions about our
>>> various projects on the wiki page associated with the article [2];
>>> unfortunately, though, most readers of the original article will probably
>>> not have a look at that wiki.
>>>
>>
>> Nature seems to allow one to write correspondence (1 page) to comment
>> about matters arising from research papers. See:
>>
>> http://www.nature.com/ng/pdf/gta.pdf
>>
>
>
> I think in this case, this is what the wiki is for. So if Lincoln Stein has
> not told the full story, people could try adding the appropriate details to
> http://nrgwiki.nature.com/cyberinfrastructureforbiology/show/HomePage
>
> I see Susanna and Eric Jain have already contributed
> http://nrgwiki.nature.com/cyberinfrastructureforbiology/recently_revised
>
> Also, if anyone is having trouble accessing the original article at
> http://dx.doi.org/10.1038/nrg2414 , as a "featured article" it should be
> available free (for the first month only), provided you sign in at
> http://www.nature.com/foxtrot/svc/login
>
> Some discussion on this over at Nature Network too
> http://network.nature.com/forums/bioinformatics/2235
>
>
> Duncan
>
> ---
> http://duncan.hull.name
>
>
>
>