W3C HCLS – Life Sciences Forum

13 Mar 2012

See also: IRC log




<alex> hi Michel, I am on the call

<alex> not sure u can hear me


<emiller> Eric from Squishymedia (Portland OR) here

Harry, UofPittsburg - biomedical informatics, want to learn more about the group

<AndreaS> Hi,

Mary, U of Georgia - ontology for health care

<egombocz> apologies to all - I will have to leave early today due to an overlapping meeting I need to attend

<alex> h Iker

<alex> its been some time

<AndreaS> Somebody should change the UK access point number!!! There is somebody answering pretending to be "my partner in evolution and success..."

<iker> Hi Alex, how are you?

<alex> nice to see u

<alex> fine

<iker> nice to see you too Alex

<alex> fine/

<alex> are u in the US?

<iker> yes I'm in Philly

<iker> what about you?

<alex> great, we should try to catch up later this year

<iker> good

<iker> feel free to ping me whenever fits for you

michel dumontier - michel.dumontier@gmail.com


<emiller> thanks, I'll follow up with an email later this AM

presentation: http://goo.gl/d19xK

<ericP> and

<ericP> manipula(ng

<ericP> RDF

<ericP> michel: we all have to work with RDF data

<ericP> ... alex is going to walk us through tools

presentation: how to deliver the power of rdf datasets to the user?
... all about the user experience

<ericP> scribenick: michel

<ericP> [slide 3]

<ericP> [slide 4]

presentation: recent review paper indicated the lack of understanding and knowledge makes it difficult to use
... review on visualizing data: hTp://iospress.metapress.com/content/2822p340453463g1/


<ericP> [slide 9]

scribe: would like more adaptable interfaces

<ericP> [slide 10]

[slide 10]

<mscottm> URL to slides?

scribe: linked data browsers run in html browsers;

slides: http://goo.gl/d19xK

<mscottm> tx

slides: not much in terms of useability
... should allow us to know what's in a dataset, how to find and get data, how to manipulate the data and personalize it

<ericP> [slide 12]

slides: sig.ma - semantic mashup

<ericP> [slide 13]

slides: relfinder - finds the path between two entities - explore the relationships

<egombocz> you may want to look at IO's Sentient Knowledge Explorer - free personal version can be downloaded at: http://www.io-informatics.com/ (upper right link)

slides: visor - pivoted search

<ericP> [slide 15]

<AndreaS> Is Visor by IO-Informatics ?

<egombocz> no

slides: how can we improve the user experience?

<ericP> [slide 16]

<AndreaS> Who is producing Visor, is there a download link ?

slides: content display - for instance lots of development around drupal

[slide 17]

scribe: information workbench: discovery, integration, visualization, search, exploration, analytics, collaborative authoring

<ericP> [slide 18]

<ericP> [slide 20]

scribe: Bio2RDF as the core dataset; infrastructure, knowledge resource

<ericP> [slide 22]

<egombocz> There is a nice UI for Visual SPARQL queries in Sentient Knoweledge Explorer (KE)

scribe: biosparl.org, bioqueries - a wiki to share quires on linked data

<egombocz> KE can directly query and import any SPARQL endpoint and merge it with experimental results

<egombocz> KE also allows to import classes and/or instances from SPARQL endpoints

lena - sparql should be hidden deep in the application

<egombocz> Users don't need to write SPARQL; they can use graphical queries

<egombocz> Apologies - my other meeting is starting, need to log off

<Zakim> ericP, you wanted to ask about network browsers like cytoscape and to mention Metaome

<AndreaS> Metaome: link ?

ericp - metaome targeted towards pharmaceutical data

scribe: general network browsing e.g. cytoscape to get the whole network in front of them
... whole network vs slice
... what actually works for researchers?

alex: looking for HCI studies that show how people want to consume this
... based on results, build other queries

<AndreaS> +q

<alex> query - answer pos processing

<alex> we are trying dasty3

<alex> a DAS browser

<ericP> -> http://www.distilbio.com/ Life Sciences Search Engine from metaome <http://www.metaome.com/>

<amrapali> sgvizler is also a recent tool used to visualize rdf data: http://code.google.com/p/sgvizler/

<Zakim> michel, you wanted to ask about sparallax

harry: users want answers to questions

alex: yes that's one way to do it - hci focuses on task-based interaction
... more than one simple question

lena - lots of knowledge in literature

scribe: tools to work to work with literature?

<Lena> @ericP: great reference about the distilbio.com, the query engine is great

<Lena> @michel, that's not me talking :O

gopubmed is useful - http://www.gopubmed.org/web/gopubmed/

alex: elsevier grand challenge

<AndreaS> who is speaking>?

alex: gather use cases

<AndreaS> +q

<alex> Bioqueries (http://bioqueries.uma.es/)

<ericP> michel: i would like to see visualization as a core HCLS activity

<alex> so do I

<ericP> ... we should consider a forming a TF

<AndreaS> +1

<mscottm> Andrea get to speak yet?

<alex> visualization and manipulation of RDF data

<ericP> ... this would be a good way to gather use cases

<ericP> ... we could engage vendors like IO-Informatics

<HarryHochheiser> I'd love to join in a task force on visualization and use cases...

everybody: please indicate your interest in a visualization task force in the irc

<iker> +1

<amrapali> +1

<alex> +1

<emiller> I'd be interested

<alex> I will be happy to share use cases, no problem

andrea: users employ very basic visualization
... focus on use cases is good
... analytics and visualization? screenshot?

<Lena> +1

<Lena> +1 (i would propose a visualization working group - from w3c)

<AndreaS> email >> andrea.splendiani@deri.org

integrate not just rdf data sources

<AndreaS> Alex, which is your email ?

<Zakim> michel, you wanted to ask about sparallax

<AndreaS> -q

<alex> alexgarciac@gmail.com

<alex> is my email

<Lena> mscottm: bottleneck is lack of semantics

<Lena> mscottm: difficult to find graph data

<maryam> My email for sending that info: mary@knoesis.org

<alex> ok, Maryam got it

<alex> my email is alexgarciac@gmail.com

<maryam> thanks

mscottm: take some features, and project one feature along a dimension (e.g. space, time or both) and look for patterns
... force directed layouts, look for visual clusters

<AndreaS> +q

<Lena> sounds like mscottm is volunteering to lead the tf :)

mscottm: what we're missing is general tools to map from semantics to visualization (type, colour, size, etc)

<AndreaS> -q

mscottm: keep the query + view

<alex> we keep talking about visualization but the use cases will involve query-answering

<AndreaS> +q

@alex - i don't agree that they are are all query answering

<AndreaS> Visualization is about finding insight in information, hence it's in some definition query-answering

<Lena> wrt visualization, exhibit3 (on which biodistill was built), is a good startng point

<AndreaS> bye

<emiller> thanks everyone

<mscottm> bye

<alex> bye all

<maryam> bye

Summary of Action Items

[End of minutes]

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Got date from IRC log name: 13 Mar 2012
Guessing minutes URL: http://www.w3.org/2012/03/13-HCLS-minutes.html
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