Dear all, We don't have a speaker for Monday but I propose whoever is interested does dail in to discuss: 1) timeframe and names for ideas below 2) how close are we to fulfilling our original use cases? 3) overlap with other HCLS subgroups 4) in summary: next steps. Time & nrs as per usual - will update when I'm on a real computer (now on mobile).
Best, Anita de Waard On Apr 17, 2011, at 5:02 PM, "Waard, Anita de A (ELS-AMS)" <a.dewa...@elsevier.com> wrote: > Dear all, > > Jodi's talk last week seemed to spur on a great amount of discussion, and > this week, as we don't have a speaker, I would like to spend our time about > the issues Jodi's talk brought up. These include: > - Alex's points below - links between the paper and workflow and experimental > ontologies; > - The connection (and if there is one) between > nanopublications/triples/research highlights (will explain on the call) and > medium-grained structure > - Uses for medium-grained structure mark up: what would be a good set of use > cases? Can we find some concrete projects to work on? > - An issue that has been discussed on a few calls now which we can also > discuss is the difference between data, author's intent, persuasive structure > and nanopublication-type summaries. > - A point that Joanne raised: can we plan a meeting to discuss this stuff in > person? > > I am sure much more will come up, once we start talking. Feel free to send > around more questions before the call, so we have a list of them to consider > before we start. > > Thanks, and look forward to talking to you tomorrow, > > Best, > > - Anita. > > Anita de Waard > Disruptive Technologies Director, Elsevier Labs > http://elsatglabs.com/labs/anita/ > a.dewa...@elsevier.com > > > > -----Original Message----- > From: public-semweb-lifesci-requ...@w3.org on behalf of Alexander Garcia > Castro > Sent: Mon 4/11/2011 11:25 > To: Jodi Schneider > Cc:... > > Hi Jodi, nice talk. > > As a general question, shouldn't the description of experiments be > something to be described by domain specific ontologies? Also, there are > repositories for experiments, e.g Array express for microarrays; there are > also minimal standards for reporting several experimental > procedures, shouldn't the sections in the document make use of, pointing to, > these resources? if ORB and other document related ontologies go into > describing experimental information I am afraid it may be difficult > to maintain and not very practical to implement. > > fine-graining ORB should, in my opinion, make use of other ontologies for > addressing domain specific issues. for instance, if a researcher wants to go > deeper into materials and methods most likely the information that will > allow him/her to "replicate" the experiment will be living somewhere else in > the web; also, most likely there will be an ontology for specific > experimental procedures, measures, etc involved. > > Once the structure of the document is solved it is easy to use resources > such as bio2rdf to resolve it against existing resources in the web. if not, > then authors can easily point to these external resources -AO can easily > deal with such a use case. my point is, experimental information is highly > domain specific and there are now ontologies (OBI) and repositories for > experimental information as well as efforts > for standardizing minimal amounts of information > (http://www.mibbi.org/index.php/Main_Page) for reporting specific > experimental procedures, shouldn't the fine grained structure of ORB seek > to make use of these resources? > > On Mon, Apr 11, 2011 at 8:09 AM, Jodi Schneider > <jodi.schnei...@deri.org>wrote: > >> Looking forward to talking with you in about an hour. >> >> Here are slides for discussion -- about the overall goal of bridging >> between ORB and the fine-grained ontology with a middle-grained ontology. >> >> The other two PDFs show >> (1) the relationship between ORB and Anita's middle-grained ontology and >> (2) a first attempt to bridge between DExI (top-level) and Anita's >> middle-grained ontology. >> >> -Jodi >> >> >> >> >> >> >> >> On 10 Apr 2011, at 19:38, Waard, Anita de A (ELS-AMS) wrote: >> >>> Dear all, >>> >>> Monday's scientific discourse call will focus on an update of the >> medium-grained ontology alignment by Jodi Schneider: see agenda and call >> details below, or at >> http://www.w3.org/wiki/HCLSIG/SWANSIOC/Actions/RhetoricalStructure/meetings/20110411 >>> >>> Kind regards, >>> >>> Anita >>> Anita de Waard >>> Disruptive Technologies Director, Elsevier Labs >>> http://elsatglabs.com/labs/anita/ >>> a.dewa...@elsevier.com >>> >>> Meeting April 11, 2011, 10 am EST, 3 pm BST, 4 pm CET >>> [edit] Agenda: >>> >>> * Jodi Schneider: 'Medium-grained ontology and alignment' >>> * Status of ontology development >>> * AOB >>> >>> [edit] Dial-in & IRC Information >>> >>> * Dial-In #: +1.617.761.6200 (Cambridge, MA) >>> * Dial-In #: +33.4.26.46.79.03 (Paris, France) >>> * Dial-In #: +44.203.318.0479 (London, UK) >>> * Participant Access Code: 42572 ("HCLS2") >>> * IRC Channel: irc.w3.org port 6665 channel #HCLS2 use IRC direct >> link or (see W3C IRC page for details, or see Web IRC) >>> * Mibbit quick start: Click on mibbit for instant IRC access >>> * Duration: 1hr >>> Elsevier B.V. Registered Office: Radarweg 29, 1043 NX Amsterdam, The >> Netherlands, Registration No. 33156677 (The Netherlands) >>> >> >> >> > > > -- > Alexander Garcia > http://www.alexandergarcia.name/ > http://www.usefilm.com/photographer/75943.html > http://www.linkedin.com/in/alexgarciac > Postal address: > Alexander Garcia, Tel.: +49 421 218 64211 > Universität Bremen > Enrique-Schmidt-Str. 5 > D-28359 Bremen > > Elsevier B.V. Registered Office: Radarweg 29, 1043 NX Amsterdam, The > Netherlands, Registration No. 33156677 (The Netherlands) > > Elsevier B.V. Registered Office: Radarweg 29, 1043 NX Amsterdam, The Netherlands, Registration No. 33156677 (The Netherlands)