<matthias_samwald> i have problems dialing in
<mscottm> good luck!
good luck
matthias_samwald, is that you?
<matthias_samwald> probably
<matthias_samwald> I have muted locally
<matthias_samwald> test...
<matthias_samwald> ok
<mscottm> impressive!
<matthias_samwald> (is the noise very bad? makes me worry about the mic-in of my eee pc...)
<mscottm> that's good - TN's name that is
<matthias_samwald> oh...
scribenic: mscottm
<mscottm> AndrewSu: introducing, discovered us from a mailing list, is here for the first time.
<mscottm> StevenLarson: introducing, graduate student working with Maryanne Martone on NIF ontology
<mscottm> Kei: Agenda is first a presentation about WikiNeuron, followed by update on HCLS KB by Matthias Samwald.
-> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-11-03?action=AttachFile&do=get&target=Wiki_Neuron.ppt WikiNeuron presentation
<mscottm> Kei: (slide1) WikiNeuron is meant for semantic neuron mashup.
<mscottm> .. There have been a growing number of wiki projects such as WikiProtein. Thinking about semantically linking these wiki's.
<mscottm> ..(slide2)WikiNeuron Prototype developed in Semantic MediaWiki.
<mscottm> ..developed by SenseLab in collaboration with NIF funded by NIH.
<mscottm> ..(slide3)SMW is page-centric. 'Category' support hierarchical structure. 'Articles' are instances/members of category. 'Properties' are used to annotate page contents and relate pages.
<mscottm> ..(slide4)Overview SMW: supports internal semantic query language, SPARQL endpoint, exports RDF so it supports Open Linked Data, Halo extension allows the use of ontologies for semantic annotation of wiki content.
<Huajun> a quick question: is the category hierarchy represented in RDF or OWL in SMW?
<mscottm> ..(slide5)WikiNeuron Semantic Structure: Categories: Brain, Database, Literature. Many categories, properties come from NIF ontology.
<Huajun> yes, I see the point, thanks
<mscottm> ..(metacomment - all slides are ppt slide number - 1) (slide6) Brain Category Trees
<mscottm> ..(slide7)Other Categories
<mscottm> ..(slide8)Tree analogy "Semantic Trees of the Mind", where a forest represents the various category trees with data instances and their connections via properties. Leaves are data.
<mscottm> ..(slide10)Want to automatically map from source data (e.g. Rdb, triple store, multimedia, article) to wiki page structure.
<mscottm> ..(slide11 - 28 screenshots)
<mscottm> ericP - can you take scribing over? I have to run..
scribenic: ericP
<mscottm> tx
key: want to iface WikiNeuron with the hcls kb
kei: want to iface WikiNeuron with the hcls kb
... want to incorporate image data
... + links to resources in other languages
... need to work closely with other communities
[shoutouts to homies]
ericP: impressed by implementation
kei: i've learned a lot doing this by hand
... need to automate to make this project more scalable
karen: when you have someone like PDSP participating, how will you update the wiki?
kei: still thinking about it
... many data sources are identified in NIF
... for others, we'll encourage them to register [with NIF?]
... hope to gen a page template to automatically create the pages
karen: couple examples of how Joe the bench scientist might use this in day-to-day work?
kei: working on more user-friendly interfaces for neuroscientists
... that's why i have created the trees and forests, presumably intuitive to neuro scientists
... hope to attract scientists
karen: seems to focus on certain populations
... text would be interesting to scientists every day
... images and brain functions seem good for education
... also could be good to make sure that different scientists are using the same terms for the same anatomy
... how will you represent other species?
kei: have feedback from Maryann Martone and Gordon Shepherd who give feedback
... will invite others to help make this useful to diverse groups
karen: should show to greg bowdin
AndrewSu: i can imagine this used by at least 3 groups (...)
kei: people can contribute with simple links to their web pages
... good for education and social links
... not good for semantic queries
... folks with structured dbs can provide semantic mappings to their resources
... need standardization to re-use terms
... and evolve concensus
... for advance SW groups, they may want to just used these ontologies to guide access to their structure
... hope what SWwiki will make SW techs available to more than SW hackers
AndrewSu: what's the hardest selling point?
kei: need to work with the community
... need to work with neuroinformatics community
... ... to transfer data
... bench scientists care about access organization and how it affects their research
... need to give them the iface they want
matthias_samwald: updating to newest version of neurocommons db
... demo was created for banff demo
... since then, db has changed
<matthias_samwald> http://neurocommons.org/page/Differences_between_v0_and_v1
-> http://neurocommons.org/page/Differences_between_v0_and_v1 new version of neurocommons db
<matthias_samwald> http://hcls.deri.ie/hcls_demo.html (SPARQL not working at the moment due to ongoing updates)
matthias_samwald: am updating the deri copy. should be a complete mirror in the next couple days
kei: dbpedia ifaces with viruoso. can do a similar iface between neurowiki and hcls kb?
... need to explore how to create this iface
matthias_samwald: main obstacle is not legacy formats but instead proliferation of disparate (unalligned) data sources
... wikineuron is certainly a good starting point
... need maps between hcls and other kbs, like bio2rdf, linked live data
<matthias_samwald> LinkedLifeData
steven: we're happy to help and excited by the progress
kei: also need to identify additional data sources
... e.g. pdb
... i'll follow up with TNBhat
... for auto-data-extraction, expect this to be a future action item
<matthias_samwald> i need to leave now, bye!
kei: discussed linking wikineuron to TCM (traditional中國 Medicine)