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RE: position in cancer informatics

From: Deus, Helena <helena.deus@deri.org>
Date: Fri, 20 Jul 2012 11:24:13 +0100
Message-ID: <316ADBDBFE4F4D4AA4FEEF7496ECAEF908358D7B@EVS1.ac.nuigalway.ie>
To: "Decker, Stefan" <stefan.decker@deri.org>
Cc: "Melvin Carvalho" <melvincarvalho@gmail.com>, <nathan@webr3.org>, "Hausenblas, Michael" <michael.hausenblas@deri.org>, <semantic-web@w3.org>, <public-lod@w3.org>, <www-rdf-interest@w3.org>, <protege-discussion@lists.stanford.edu>, <semanticweb@yahoogroups.com>, <dbworld@cs.wisc.edu>, <machine-learning@egroups.com>, <taverna-users@lists.sourceforge.net>, <bbb@bioinformatics.org>
WeConsent (http://weconsent.us/about.) is trying to address that through
encouraging people to freely share their own health/genomics data
instead of expecting health care professionals to do so. Supporting the
deposition of this data by the patients may be step #1 towards a
computational infrastructure.


From: Stefan Decker [mailto:stefan.decker@deri.org] 
Sent: 20 July 2012 10:23
To: Deus, Helena
Cc: Melvin Carvalho; nathan@webr3.org; Hausenblas, Michael;
semantic-web@w3.org; public-lod@w3.org; www-rdf-interest@w3.org;
protege-discussion@lists.stanford.edu; semanticweb@yahoogroups.com;
dbworld@cs.wisc.edu; machine-learning@egroups.com;
taverna-users@lists.sourceforge.net; bbb@bioinformatics.org
Subject: Re: position in cancer informatics


The discussion seem to point to a deeper question: how to enable crowd
sourcing of the analysis of these kind of data sets? This may involve
running of analysis code or maybe even manual work.

What kind of computational infrastructure would we need to enable this?
And how do we validate and aggregate results?

On Thursday, 19 July 2012, Helena Deus wrote:

An on a related topic and the reason why doing cancer informatics is so
exciting in this area: a happy story where exploring data patterns
enabled curing a cancer which had a 4-5% survival chance -




On Jul 19, 2012, at 7:41 PM, Melvin Carvalho wrote:


On 17 July 2012 22:27, Nathan <nathan@webr3.org
<javascript:_e(%7b%7d,%20'cvml',%20'nathan@webr3.org');> > wrote:

Can you open this right up for everybody to be involved?

I know I for one would be happy to invest free time to looking at these
datasets to find patterns - are they open and available online, any
pointers to get started, anything at all that would enable me (and
hopefully others skilled here) to work on this?

It sounds like less of a "position" and more of a global need we who can
should all be pumping time in to.

Maybe related:

15-Year-Old Maker Astronomically Improves Pancreatic Cancer Test


He gleaned information on the topic from his "good friend Google," and
began his research. Yes, he even got in trouble in his science class for
reading articles on carbon nanotubes instead of doing his classwork.
When Andraka had solidified ideas for his novel paper sensor, he wrote
out his procedure, timeline, and budget, and emailed 200 professors at
research institutes. He got 199 rejections and one acceptance from Johns
Hopkins: "If you send out enough emails, someone's going to say yes."


	Helena Deus wrote:

	Dear all, 
	We have an exciting research assistant position open at DERI for
a chance to work with Cancer Informatics! We are looking for an
enthusiastic developer who is familiar with bioinformatics concepts.
Your role will be exploring cancer related datasets and looking for
pattern (applying, for example, machine learning techniques) that can be
used for personalized medicine. 
	Please don't hesitate to Fw. this to whomever you think might be
	To apply or to ask for more information, please reply to me
<javascript:_e(%7b%7d,%20'cvml',%20'helena.deus@deri.org');> ) with CV +
motivation letter 
	Kind regards, Helena F. Deus, PhD
	Digital Enterprise Research Institute




Professor Stefan Decker
Director, Digital Enterprise Research Institute,
Professor of Digital Enterprise
National University of Ireland, Galway. Ireland.
Tel: +353.91.495011
E-mail: stefan.decker@deri.org
Web: http://www.deri.ie
Personal: http://www.stefandecker.org
Received on Friday, 20 July 2012 10:24:59 UTC

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