prof. richard o. sinnott national e-science centre university of glasgow, scotland
DESCRIPTION
Supporting Security-Oriented Interdisciplinary Research: Crossing the Social, Clinical and Geospatial Domains. Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland [email protected]. The Context. Many Grids EGEE, NGS, D-Grid, Naregi, OSG,… - PowerPoint PPT PresentationTRANSCRIPT
![Page 1: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/1.jpg)
AHM 2008,11th September 2008
Supporting Security-Oriented Interdisciplinary Research:
Crossing the Social, Clinical and Geospatial Domains
Prof. Richard O. Sinnott National e-Science Centre
University of Glasgow, [email protected]
![Page 2: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/2.jpg)
AHM 2008,11th September 2008
The ContextMany Grids
EGEE, NGS, D-Grid, Naregi, OSG,… Many definitions and standards
OGSA, OGSI, WSRF, WS-I, WS-ACRONYM-GOES-HERE…Many solutions
Semantic web/Grid, ...Web 2.0, wikis, mash-ups, collaboratories, clouds (fluffy/ill defined!)…Unicore, Globus, gLite, WS-…, OGSA-DAI, …
Tis all a bit (a lot!!!) of a mess… couple that with the data and knowledge explosion in many (all?) domains, and we have a recipe for chaos
“Grid” to me is solution that supports (simple) seamless access to a heterogeneous variety of compute and data resources
Often domain specific – especially data!
(simple) single sign-onsupport researchers and research, especially inter-, trans- disciplinary research
often at the risk of being non-sexy!
![Page 3: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/3.jpg)
AHM 2008,11th September 2008
Interdisciplinary e-Health Example
Nu
cleo
tid
e se
qu
ence
s
Nu
cleo
tid
e st
ruct
ure
s
Gen
e ex
pre
ssio
ns
Pro
tein
Str
uct
ure
s
Pro
tei n
fu
nct
ion
s
Pro
tein
-pro
tein
inte
ract
ion
(p
ath
way
s)
Cel
l
Cel
l sig
nal
lin
g
Tis
sues
Org
ans
Ph
ysio
logy
Org
anis
ms
Pop
ula
tion
s
Security-oriented Middleware
biologists, bioinformaticians,
statisticians, clinicians,
pharmacists, epidemiologists,
physicists, chemists,
...
+ environmental, social, geographic …+ environmental, social, geographic …
VOTES
DAMES SeeGEO
![Page 4: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/4.jpg)
AHM 2008,11th September 2008
Example of Inter-disciplinary Research
Typical Query What is the correlation between living adult males over 50 years of age in
Scotland who have had type-2 diabetes for 5 years or more and those employed in manual versus office jobs, i.e. does having the type-2 diabetes condition imply that those afflicted are more likely to be employed in manual or office jobs? Where in Scotland is this most prevalent?
Why?Health inequalities, impacts of policies,…
For example…Male life expectancy for the whole of Glasgow averages 70.7 yearsIn East Glasgow, it goes right down to 53.9 years in the Calton ward
UK National Average 77 years, Mongolia 65, Ghana 59, Gambia 54
![Page 5: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/5.jpg)
AHM 2008,11th September 2008
Data, Data, Data
No magic bullet for data management on the GridYou can use data if you
a/ know where it is, b/ are allowed to access it, c/ know its format, d/ trust it is authentic,e/ are sure of its quality,f/ have the right local widget to talk to the right remote widgetz/…
a/ there are MANY, MANY, MANY resources out thereTis scary just how big the internet is! (see later)
b/ there are MANY, MANY, MANY ways to define and enforce access policies
Grid sexy security stuff vs real world of NHS, Range of data stakeholders, Ethics, Information governance, Sys-admin/user perspectives…
![Page 6: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/6.jpg)
AHM 2008,11th September 2008
Data Grids
There is no single solutionWhy?
Things change Science revolutionGrid technology revolution
General principles/patterns are what we needHow do I set up a Virtual Organisation to do research into X?
Connecting users/software/resources across sites Seamless access, End-end security, …
How do I connect multiple Virtual Organisations to do research into X, Y and Z?
Clinical VOs vs other VOs
![Page 7: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/7.jpg)
AHM 2008,11th September 2008
AAAA
Grid Security
AAAA
Users like usernames/passwordsProvide them (once!)
Users don’t like/understand X.509 based PKIForget training, education for most users!
$> openssl pkcs12 -in cert.p12 -clcerts -nokeys -out usercert.pem!
The vast majority most certainly won’t jump through hoops to get on the Grid
“me-Science” culture
Should all be transparent to end users and Should all be transparent to end users and aligned with the way that want to work/access aligned with the way that want to work/access resourcesresources
Access Management Federation (Shibboleth) + authZ technologiesAccess Management Federation (Shibboleth) + authZ technologies
![Page 8: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/8.jpg)
AHM 2008,11th September 2008
Shibboleth Decentralised Approach
Service provider
ShibFrontend
5. Pass authentication info and attributes to authZ function
Grid Portal
6. Make final AuthZ decision
Grid Application
Identity Provider
Home Institution
W.A.Y.F.
Federation
User1. User points browser at Grid
resource/portal
2. Shibboleth redirects
user to W.A.Y.F. service
3.User selects their
home institution
4. Home site authenticates user and
pushes attributes to the service provider
AuthNLDAP
LDAPAuthZuid
Log-in once and roamUser
AuthNLDAP
LDAP
AuthZ
Identity Provider
Home Institution
4. H
ome
site
auth
entic
ates
user
and
pu
shes
attr
ibut
es to
the
serv
ice p
rovid
er
User points browser
at Grid resource/
portal
?
?
?
?
![Page 9: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/9.jpg)
AHM 2008,11th September 2008
Inter-disciplinary DataData, data everywhere… Or better yet, services, services everywhere…
Clinical Data VOTES project
– Primary care data, – Secondary care data, – Disease registries, …
Social Science Data DAMES project
– Occupational data – Social classification– Census data (educational, housing, family, ...)– Survey data sets – Ethnicity …
Geospatial data SeeGEO project
– EDINA UK Borders– DigiMap
![Page 10: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/10.jpg)
AHM 2008,11th September 2008
Security-oriented Socio-, Geo-, Clinical Data Infrastructures
Licenses, privileges
Others
![Page 11: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/11.jpg)
AHM 2008,11th September 2008
VOTES
Virtual Organisations for Trials and Epidemiological Studies
3 year (£2.8M) MRC funded project started October 2005Plans to develop framework for producing Grid infrastructures to address key components of clinical trial/observational study
Recruitment of potentially eligible participants Data collection during the study Study administration and coordination
– Involves Glasgow, Oxford, Leicester/Nottingham, Manchester, Imperial
» Strong links with UK Biobank
Clinical Virtual Organisation Framework
IMP
CVO-2 (e.g. for
recruitment)
Used to realise
GPs
Lei- Nott GLA
OX
Disease registries
Hospital databases
Transfer Grid
CVO-1 (e.g. for data collection)
Clinical trial data sets
![Page 12: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/12.jpg)
AHM 2008,11th September 2008
VOTES Scottish ExperiencesScottish Data Space… up to now
Scottish Care Information (SCI) Store Hospital batch system rolled out across Scotland (lab data, patient records…)
Scottish Morbidity Records (SMR) Aggregated clinical records from last 40 years across Scotland We have been given pseudo-anonymised
– SMR01A General acute inpatient and day case discharges (3,719,206 records)
– SMR04A Psychiatric and mental handicap hospitals and units: admissions, residents and discharges (241,599 records)
– SMR06A Scottish cancer registrations (171,167 records) – SMR99A Deaths (173,615 records)
General Practitioners Administration System for Scotland (GPASS)
Used by 85% of GPs across Scotland
Consent Opt-in/opt-out trial, study, disease area, …
Applied in range of areas/projects: UK Biobank, Congenital anomaly, Brain trauma, Diabetes, Knee pain/obesity,
Prostate cance.…
Community Health Index (CHI) number key to this!
![Page 13: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/13.jpg)
AHM 2008,11th September 2008
DAMESNCeSS Data Management through e-Social Science node
Lead by Stirling NeSC Glasgow involvement started August 2008
Occupational dataSocial classificationCensus data (educational, housing, family, ...)Survey data sets Ethnicity…
![Page 14: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/14.jpg)
AHM 2008,11th September 2008
DAMES::GEODE
![Page 15: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/15.jpg)
AHM 2008,11th September 2008
DAMES::GEODE
![Page 16: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/16.jpg)
AHM 2008,11th September 2008
DAMES::EuroOccupations
![Page 17: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/17.jpg)
AHM 2008,11th September 2008
DAMES::UK Data Archives
![Page 18: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/18.jpg)
AHM 2008,11th September 2008
DAMES::CESSDA
![Page 19: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/19.jpg)
AHM 2008,11th September 2008
DAMES::ONS
![Page 20: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/20.jpg)
AHM 2008,11th September 2008
SeeGEO::EDINA
![Page 21: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/21.jpg)
AHM 2008,11th September 2008
SeeGEO Project
Census data 1991 and 2001
Changes in UK Borders
![Page 22: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/22.jpg)
AHM 2008,11th September 2008
Demo Walk Through.
1. User attempts to access clinical trials
portal
![Page 23: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/23.jpg)
AHM 2008,11th September 2008
![Page 24: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/24.jpg)
AHM 2008,11th September 2008
![Page 25: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/25.jpg)
AHM 2008,11th September 2008
![Page 26: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/26.jpg)
AHM 2008,11th September 2008
![Page 27: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/27.jpg)
AHM 2008,11th September 2008
![Page 28: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/28.jpg)
AHM 2008,11th September 2008
2. User redirects browser to geospatial
portal
![Page 29: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/29.jpg)
AHM 2008,11th September 2008
![Page 30: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/30.jpg)
AHM 2008,11th September 2008
![Page 31: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/31.jpg)
AHM 2008,11th September 2008
SeeGEO Project
![Page 32: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/32.jpg)
AHM 2008,11th September 2008
3. User redirects browser to DAMES
portal
![Page 33: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/33.jpg)
AHM 2008,11th September 2008
![Page 34: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/34.jpg)
AHM 2008,11th September 2008
![Page 35: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/35.jpg)
AHM 2008,11th September 2008
ConclusionsSystems driven by Information Governance/Ethics
MREC, LREC, PAC, PIAG, Caldicott Guardians, Joe Public
Once defined have tools/techniques to rapidly roll-out e-Infrastructures to support researchers
Diabetes?Cancer?Obesity?Smoking?Health/Wealth?Genetics and Healthcare?Nature / Nurture?
Focus not on single VO but supporting many VOs that have their own access/usage policiesUnderstanding data models are ESSENTIAL to make any of this work!!!
![Page 36: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/36.jpg)
AHM 2008,11th September 2008
A Final Word
![Page 37: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/37.jpg)
AHM 2008,11th September 2008
DAMES::SCROL
![Page 38: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/38.jpg)
AHM 2008,11th September 2008
DAMES::SCROL
![Page 39: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/39.jpg)
AHM 2008,11th September 2008
DAMES::SCROL
![Page 40: Prof. Richard O. Sinnott National e-Science Centre University of Glasgow, Scotland](https://reader033.vdocuments.net/reader033/viewer/2022051416/56814616550346895db320f4/html5/thumbnails/40.jpg)
AHM 2008,11th September 2008
Questions …?