introduction

<maged> i think it works now

<maged> ty

<maged> ipcaller maged

<ericP> scribenic: kei

introductions

maged: lecturer at plymouth univ. UK, presenter today

<maged> http://www.plymouth.ac.uk/staff/mnkamelboulos

jun: postdoc at oxford, flyweb project

http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-11-17?action=AttachFile&do=get&target=20081117_BioRDF_TC_20081116.ppt

andrew: patten of citation follows power law

<ericP> The Gene Wiki, from a BioRDF-naïve perspective

gene wiki

andrew: bottleneck in data annotation/curation
... long tail vs. short head
... wikipedia emphasizes large community contribution
... concern about wiki (e.g., accuracy) reported in Nature (comparing Britanaca and Wikipedia)
... open model of content generation producing a huge breadth of data
... why this paradigm applies to gene annotation
... structured view (e.g., entrez gene) vs. unstructured wiki text (machine vs human readability)

<maged> we have just published on this: see http://www.ncbi.nlm.nih.gov/pubmed/18998977 and Clauson KA, Polen HH, Kamel Boulos MN, Dzenowagis JH. Scope, completeness, and accuracy of drug information in Wikipedia. The Annals of Pharmacotherapy. 2009; 43: in press

andrew: may be easier to incorporate things like images into unstructured text
... wiki keeps a nice history of revisions -- two way commumnication works well for gene annotation
... gene stubs creation -- complementary to existing manual creation of gene articles
... gene wiki added 7500 automatically generated gene stubs
... info box gene annotation databases (e.g., entrez genes, ensembl, references, etc)
... most biologists more likely edit existing articles than creating new articles ...
... critical mass of articles linked to/from
... there is an active group of molecular biologists actively participating in the wikipedia project
... evaluation of gene wiki - increase of editing activities was observed
... solicit postive feedback loops
... it is hoped that the gene stubs would attract more readers who can introduce some edits ...
... the model of community editing is shown in wikipedia
... getting data in first, before worrying too much about getting data out in standard format

<ericP> massive plaintext disaster

andrew: semantic annotation -- how to do it right and who should do it?
... authorative source vs community contribution
... pipeline of getting data out of WP?

<Zakim> ericP, you wanted to ask about the payback for gene infoboxes

ericP: people wants consistently coded way of presenting info using info boxes, how is this applied to gene annotation ...

<maged> you create a wiki template for each

andrew: how dbpedia works?

ericP: infobox info extraction?

Susie: who is the person you mentioned who do the infobox extraction?

concrete steps in is identify things in infoboxes and identify those missing in the infoboxes

<Susie> Chris Bizer has been involved in the Linked Data project from the start

web visualization

<ericP> kei, slides link?

<maged> http://www.google.com/intl/en/press/annc/20081112_earthrome.html

http://healthcybermap.org/MNKB--Why_visualize_RL_data_in_SL.zip

maged: mirror world transforms into 3D world
... navigation in 3D space -- 3D wiki?
... chat room, teleconference -- future worlds bring face-to-face meetings into 3D virtual environment
... people who are geographically distributed can meet in vitural worlds like second life
... avartars (simulated people) can be created to reflect reality closely
... cognitive skills incorporated into VW
... human interactions are spatial in nature
... bringing google earth environment into Second Life
... why we need 3D for collaborative environment

<maged> http://www.slideshare.net/sl.medic/3d-realvirtual-worlds-for-health-and-healthcare/

maged: performance is governed by hardware which is descreasing in costs
... iso standard -- mpeg V --

<maged> mpeg-v http://www.chiariglione.org/mpeg/working_documents/mpeg-v/mpeg-v_Reqs.zip

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No ScribeNick specified.  Guessing ScribeNick: kei
Inferring Scribes: kei
Default Present: AndrewSu, EricP, Kei_Cheung, Huajan, Susie, Andrew, Jun, maged
Present: AndrewSu EricP Kei_Cheung Huajan Susie Andrew Jun maged

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Got date from IRC log name: 17 Nov 2008
Guessing minutes URL: http://www.w3.org/2008/11/17-BioRDF-minutes.html
People with action items: 

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