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Transcript of Copyright 2010 Digital Enterprise Research Institute. All rights reserved. Digital Enterprise...
Copyright 2010 Digital Enterprise Research Institute. All rights reserved.
Digital Enterprise Research Institute www.deri.ie
Solving Problems with Biology …via Linked Data
Digital Enterprise Research Institute www.deri.ie
21st Century will be the Age of Biology
Climate Change
Nutritious Food
Sustainable Energy
Disease and Ageing
Digital Enterprise Research Institute www.deri.ie
The most amazing molecule
4 letter code
2 chains, exact mirrors!
Same genetic code for all living cells!
- Adenosine
- Timine
- Citosine
- Guanine
- Adenosine
- Timine
- Citosine
- Guanine
Able to make copies of itself!
Digital Enterprise Research Institute www.deri.ie
Making a human
Digital Enterprise Research Institute www.deri.ie
Biology explained
Digital Enterprise Research Institute www.deri.ie
Creating Synthetic Biology
Genetic engineering… oversimplified
DNA!
Bio-fuel producing gene
Biofuel
CO2
Digital Enterprise Research Institute www.deri.ie
BioHacking = Do-it-yourself Biology by amateurs!
Bio
Bio
Digital Enterprise Research Institute www.deri.ie
Executable Cell Biology
Cell and computers are not that different
Src
: htt
p:/
/gen
e-t
hera
py.
yola
site
.com
/pro
cess
.php
Activator genes
Repressor genes
Digital Enterprise Research Institute www.deri.ie
Where does LD fit in all of this?
Let’s make a “virtual” experiment
Which gene?
Digital Enterprise Research Institute www.deri.ie
?gene
biofuel
CO2
Non-toxic
Not-soluble H2O
Digital Enterprise Research Institute www.deri.ie
Not that simple…
U de Lichtenberg et al. Science 2005;307:724-727
?sugar
Biofuel
? ?gene
?
?
Digital Enterprise Research Institute www.deri.ie
The Linked Data Cloud“Life sciences will drive adoption of the Semantic Web, just as high-energy physics drove the early Web.” - BioIT World, 2005
Digital Enterprise Research Institute www.deri.ie
Linked Data for Understanding Cancer
Digital Enterprise Research Institute www.deri.ie
Link the Data, cure the disease
What your doctor is not telling you! Drugbank ClinicalTrialDiseasome
Digital Enterprise Research Institute www.deri.ie
The diseasome project
Digital Enterprise Research Institute www.deri.ie
Biosurveillance!! Today!
Digital Enterprise Research Institute www.deri.ie
Linked Data to track E. coli infection
UKE. coli
GermanyE. coli
Digital Enterprise Research Institute www.deri.ie
Sou
rce:
htt
p:/
/ww
w.n
yti
mes.
com
/im
ag
ep
ag
es/
20
07
/01
/22
/sci
en
ce/2
00
70
12
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ILLO
.ht
ml
Nothing in Biology Makes Sense Except in the Light of Evolution (Dobzhansky, 1973)
Digital Enterprise Research Institute www.deri.ie
Toss the details, understand the patterns Navigating the genetic landscape with simplified
views
Source: http://www.sciencemag.org/content/327/5964/425.full
… IN THE CELL
IN CANCER OR …
Digital Enterprise Research Institute www.deri.ie
Where is the data?
http://linkeddata.org
http://sindice.comhttp://www.w3.org/wiki/HCLSIG/LODD/Data
Digital Enterprise Research Institute www.deri.ie
21st Century Biology belongs to BioHackers!