Re: Good news from the EBI Semantic Web Industry Workshop and LODD members

Hi Scott,

Erick was asking for the Industry programm, if I got it right, but you 
are asking for the workshop.

I put up a page, where the material goes.

     -drs-

On 29/09/2011 09:38, M. Scott Marshall wrote:
> Hi Dietrich,
>
> Many people on this list would be curious about the contents of a
> tutorial on "Linked Data / Ontologies / Semantic resources". I can
> think of several who would be interested.. The relevance of the EBI
> work to HCLS has already been demonstrated by your and James Malone's
> engagement* with the BioRDF task force.
>
> It would be great if you could put a link to the slides on the EBI web
> page for your tutorial and send the link to the list.
>
> Cheers,
> Scott
>
> * as well as: Helen Parkinson, Tomasz Adamusiak, Christoph
> Grabmeuller, Camille Laibe, Nicolas Le Novere, and others from EBI.
>
> On Thu, Sep 29, 2011 at 10:08 AM, RebholzSchuhmann
> <d.rebholz.schuhmann@gmail.com>  wrote:
>> Hi Erick,
>>
>> not sure who else is interested in them. I will send them in a separate
>> email.
>>
>>     -drs-
>>
>>> Hi Rebholz,
>>>
>>> are the slides you mentioned already available? if so, where can I find
>>> them?
>>>
>>> thanks,
>>> Erick
>>>
>>> On 26 May 2011 09:08, RebholzSchuhmann<d.rebholz.schuhmann@gmail.com>
>>>   wrote:
>>>> Hi,
>>>>
>>>> this looks pretty comprehensive.
>>>>
>>>> Below is the list of speakers:
>>>>
>>>> M. Scott Marshall (The W3C consortium). Where is the W3C now and what
>>>> should
>>>> happen next?
>>>> Phil Brooks (Eli Lilly), Semantic Web for Health Care and Life Sciences
>>>> (Tutorial)
>>>> Lee Harland (Pfizer) Industry needs
>>>> Derek Scuffell (Syngenta) Opportunities and minimum requirements for
>>>> industry
>>>> Phil Ashworth (UCB) Industrial Strength Architectures for life sciences,
>>>> including considerations for federated search.
>>>> Don Jennings (Eli Lilly) Experience of TopBraid, Integrating semantic
>>>> access
>>>> to data within Lilly and building linked data maps
>>>> Laurent Alquier (J&J) Intranet data integration using Semantic MediaWiki
>>>> Nicolas Le Novère (EMBL-EBI), the Importance of Semantics to Systems
>>>> Biology
>>>> Dietrich Rebholz-Schuhmann (EMBL-EBI) Practical experiences from the SESL
>>>> (Semantic Enhancement of the Scientific Literature) project.
>>>> Jerven Bolleman (SIB) Quality control using sparql and UniProt rdf
>>>> Jeremy Frey (U. Southampton) Practical applications of semantic web
>>>> technology in Chemistry.
>>>> Dean Allemang Examples of best practice from industry
>>>> Michel Dumontier (Carleton University) Bio2RDF
>>>> Matthias Samwald, (Medical University of Vienna), title TBC
>>>>
>>>> =>    50 Attendees sounds right.
>>>> =>    There has been some room for break-out sessions and the definition of
>>>> business needs / challenges
>>>> =>    The workshop serves as one source of input to define the EBI's stand
>>>> on
>>>> Semantic Web technology (past, present, future)
>>>> =>    The IP workshop was followed by a two-day tutorial on Linked Data /
>>>> Ontologies / Semantic resources (Slides will be available soon)
>>>>
>>>> Concerning Scott's email: there are a couple of resources (Triple Stores)
>>>> under development at the EBI, which are or will be available as public
>>>> resources and which distribute data of different kinds:
>>>> * SPARQL endpoints (UniProt, SESL, possibly ChEMBL)
>>>> * Triple Stores for download:
>>>> *** UniProt
>>>> *** SESL: Diabetes driven data integration, incl. ArrayExpress, UniProt,
>>>> publisher data, in preparation
>>>> *** CALBC: several 100k Medline abstracts with a large number of
>>>> annotations, genes/proteins, diseases, chemical entities, species, all
>>>> about
>>>> immunology
>>>>
>>>> Stay tuned,
>>>>      -drs-
>>>>
>>>>
>>>>
>>>> On 25/05/2011 11:57, LeeH wrote:
>>>>
>>>> I didnt see these questions get answered so...
>>>>
>>>> - The workshop was organised by me (Lee Harland, Pfizer), Derek Scuffle
>>>> (Syngenta), Dominc Clark&    Nicolas Le Novere.
>>>>
>>>> - There were about 50 people there, mostly industry and some invited
>>>> speakers&    some EBI
>>>>
>>>> - For those who dont know it, the EBI industry programme is a
>>>> subscription-based group that provides a mechanism for life science
>>>> industry
>>>> to work directly with the EBI on strategy and addressing needs. The
>>>> workshop
>>>> was part of a large series of workshops we run on many different topics
>>>> relevant to industry (google ebi industry programme for more info). The
>>>> aim
>>>> of this was to allow industry to chat about its experience with SW in an
>>>> informal setting, away from the pressure of big conferences, and to
>>>> explore
>>>> areas of collaboration with the EBI
>>>>
>>>> - There were no biotech representatives there; the EBI also runs an SME
>>>> forum which provides a similar mechanism for EBI&    biotech to get
>>>> together.
>>>> I dont know much more than this, but if interested Dominic Clark is your
>>>> man.
>>>>
>>>> - Access to the presentations. I was going to speak to dominic about this
>>>> next week. Generally presentations are stored in a secure website, which
>>>> allows presenters (especially from companies) to be sure their materials
>>>> are
>>>> not generally distributed. However, i think many presenters whould be OK
>>>> with this, so we will see what we can do...
>>>>
>>>> - Finally, is this related to the Pistoia alliance.... The direct answer
>>>> is
>>>> no. The EBI industry programme is a completely separate entity and this
>>>> was
>>>> purely based on that. However, a significant number of folks who are
>>>> active
>>>> in Pistoia (such as me) have also worked long term with the EBI. the EBI
>>>> is
>>>> also a member of Pistoia too. So, i think the best thing to say is that
>>>> "there are great connections between the 2 groups". Also the EBI is the
>>>> lead
>>>> on the Pistoia SESL project (semantic enrichement of the scientific
>>>> literature - more details are available to those interested), so there
>>>> are
>>>> firm connections between ebi&    pistoia in the semantic area
>>>>
>>>> I think that answers all the questions I've seen.... Happy to talk to
>>>> anyone
>>>> about thoughts/opportunities etc. Within Pistoia we're actively
>>>> discussing
>>>> where the semantic web fits, to that end there's an interesting meeting
>>>> coming up
>>>>
>>>> http://www.pistoiaalliance.org/2011-Events/6-june-2011-pistoia-alliance-technical-committee-open-teleconference-and-webinar.html
>>>>
>>>>
>>>> Lee
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On 25 May 2011 09:17, Erick Antezana<erick.antezana@gmail.com>    wrote:
>>>>
>>>> are the presentations/program somewhere available?
>>>>
>>>> was there any representative of a biotech company attending such
>>>> workshop?
>>>>
>>>> is it somehow related to the Pistoia Alliance?
>>>>
>>>> cheers,
>>>> Erick
>>>>
>>>> On 25 May 2011 00:56, M. Scott Marshall<mscottmarshall@gmail.com>    wrote:
>>>>> Last week, Michel Dumontier, Matthias Samwald and I were invited to
>>>>> speak at the EBI Semantic Web Industry Workshop. We each gave some
>>>>> HCLS perspectives and heard many other very interesting talks from
>>>>> industry representatives. Phil Brooks (Johnson&    Johnson) gave an
>>>>> excellent tutorial. TopBraid Composer was widely touted. A few
>>>>> encouraging news items: Nicolas Le Novere told us that MIRIAM
>>>>> identifiers will go to URIs (from URNs) and Jerven Bolleman told us
>>>>> that Uniprot is getting a SPARQL endpoint for their RDF. There was a
>>>>> strong pharma presence at the workshop.
>>>>>
>>>>> Also, on the LODD front:
>>>>>
>>>>> * Oktie Hassanzadeh has created a linkedct (linked version of
>>>>> clinicaltrials.gov) that is updated nightly
>>>>> * Anja Jentzsch is working on an update of several Berlin-hosted LODD
>>>>> data
>>>>> sets
>>>>> * Egon Willighagen is updating the downloadable RDF version of ChEMBL
>>>>> to version 9
>>>>>
>>>>> Cheers,
>>>>> Scott
>>>>>
>>>>> --
>>>>> M. Scott Marshall, W3C HCLS IG co-chair, http://www.w3.org/blog/hcls
>>>>> http://staff.science.uva.nl/~marshall
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Dietrich Rebholz-Schuhmann, MD, PhD - Research Group Leader
>>>> EBI, Wellcome Trust Genome Campus, Hinxton CB10 1SD (UK)
>>>>   - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
>>>> TM support:www.ebi.ac.uk/Rebholz-svr | tm-support@ebi.ac.uk
>>

Received on Thursday, 29 September 2011 08:42:27 UTC