- From: M. Scott Marshall <mscottmarshall@gmail.com>
- Date: Thu, 29 Sep 2011 10:55:15 +0200
- To: RebholzSchuhmann <d.rebholz.schuhmann@gmail.com>
- Cc: Erick Antezana <erick.antezana@gmail.com>, HCLS <public-semweb-lifesci@w3.org>, Dominic Clark <clark@ebi.ac.uk>
Hi Dietrich, In your previous message from May, I thought that the "(Slides will be available soon)" applied to the last bullet point that they were part of - that bullet point was about the tutorial. So, actually, I was asking for a link to the slides from the tutorial. Slides from the Industry Programme Workshop presentations would be interesting to share with HCLS as well. Should I ask Dominic Clark about that (now CC'd)? Cheers, Scott On Thu, Sep 29, 2011 at 10:41 AM, RebholzSchuhmann <d.rebholz.schuhmann@gmail.com> wrote: > 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 >>> > -- M. Scott Marshall http://staff.science.uva.nl/~marshall
Received on Thursday, 29 September 2011 08:55:46 UTC