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Re: Introduction(s) to HCLS IG

From: Helena Deus <helenadeus@gmail.com>
Date: Mon, 9 Mar 2009 13:18:32 -0500
Message-ID: <6bd01db90903091118p1652dd25y5bece42769ab59b6@mail.gmail.com>
To: marshall@science.uva.nl
Cc: W3C HCLSIG hcls <public-semweb-lifesci@w3.org>
Hi all,
I am Lena and am currently a graduate student at the University of Texas MD
Anderson Cancer Center. My advisor, Jonas Almeida, who heads the Integrative
Bioinformatics Laboratory at MDAnderson was the one who initially got me
interested in using RDF and  SPARQL to integrate biomedical and molecular
data. The main focus of my work has been on exposing biomedical data to the
Semantic Web (as SPARQL endpoints) without the conversion of relational
databases to RDF (by serializing the queries).

We have developed a prototype of an application, we call it S3DB (Simple
Sloppy Semantic Database, www.s3db.org), first published in 2006 in Nature
Biotechnology (
http://www.nature.com/nbt/journal/v24/n9/abs/nbt0906-1070.html) and 2008 in
PLOS One (
http://www.plosone.org/article/info:doi/10.1371/journal.pone.0002946). S3DB
is a management model for integrative bioinformatics where the user is part
of the ontology. By that I mean that individual users can be granted access
to individual RDF resources rather than at the point of access.


On Fri, Mar 6, 2009 at 2:27 PM, M. Scott Marshall

> Several new people have joined HCLS IG http://www.w3.org/2001/sw/hcls/lately. Welcome! We have a tradition of sending an Introduction so the
> mailing list to help participants get to know each other and find common
> interests. Would those of you who haven't yet done so please send an
> introduction to the list? The introductions to date are archived here
> (thanks to Duncan Hull's initiative):
> http://esw.w3.org/topic/Introductions
> If you are new to HCLS IG, be sure to look at
> http://esw.w3.org/topic/HCLSIG. There you will find an overview of the
> group's task forces. Each task force meets either weekly or bi-weekly in a
> teleconference. Time and day of the week, as well as access instructions are
> on the main wiki page for each task force.
> The use of IRC and Zakim (a teleconference bridge) help 'telcon'
> participants to more easily communicate and capture information. Below, you
> will find some information that will help you to make the most of our online
> teleconferences.
> Best,
> Scott
> --------------------------------------------------------------------------
> ++++
> ++++
> * If you do not have an IRC client installed on your computer, you can get
> one of the many free one (search "irc client" and your platform), or you can
> use a web-based client.
> One possible web-based client you might try is Mibbit (
> http://www.mibbit.com/chat/). If you use mibbit, fill out the blanks like
> this: you need to click on "Server" (highlighted in red in attached image)
> to reveal the "Server address" field. NOTE: this meeting will use the "hcls"
> channel, NOT "hcls2" as seen in the attached screenshot.
> (Note that I suggest using port 80 from mibbit. The W3C irc server supports
> this, and it neatly bypasses enterprise firewall issues that many users seem
> to be having with port 6667.)
> +++++
> Zakim
> +++++
> Teleconferencing at the W3C is based on a customized telconferencing
> system called Zakim [3][4]. Zakim is combined with IRC to facilitate a
> meeting with a set of services including tracking of speaker queues,
> registering names to caller's telephones, and generating transcripts of
> the meeting.
> Prior to the call, please either check that you can access Web IRC [5],
> which requires a W3C login and password, or install and run an IRC
> client program on the machine that you will use during the conference [6].
> QuickView Guide to Zakim Commands
>      IRC command        Touchtone    Description
> ----------------------------------------------------------------------
> |  q+                   | 41#   | add me to the speaker's queue      |
> |  q-                   | 40#   | remove me from the speaker's queue |
> |  zakim, mute <name>   | 61#   | Mute my phone                      |
> |  zakim, unmute <name> | 60#   | Unmute my phone                    |
> ----------------------------------------------------------------------
> A few basic guidelines will help new participants in the Kickoff Telcon
> to get off on the right foot:
> Calling in
> When you call in, please announce your name after the two tone beep that
> marks entry to the meeting. Please mute your phone immediately after
> announcing yourself. This will prevent background noise from entering
> the shared audio for the teleconference.
> Muting your phone
>  From a touch tone phone, 61# Mutes and 60# unmutes. "zakim, mute
> <name>" also works, as well as "zakim, unmute <name>". Don't forget to
> unmute when it's your turn to speak!
> Raising your hand to talk
>  From IRC, the command is "q+", which places your IRC name on the queue.
> 41# is the touch tone equivalent. This system helps to ensure that
> everyone gets a chance to speak. q- or 40# takes your name off the queue.
> [1] http://esw.w3.org/topic/HCLSIG/
> [2] http://esw.w3.org/topic/HCLSIG/Meetings/2008-06-12_Conference_Call
> [3] http://www.w3.org/2001/12/zakim-irc-bot.html
> [4] http://www.w3.org/2002/01/UsingZakim
> [5] http://cgi.w3.org/member-bin/irc/irc.cgi
> [6] http://www.w3.org/Project/IRC/#Client
Received on Monday, 9 March 2009 19:51:26 UTC

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