barend mons slides from #ismb 2014: trends in data publishing
DESCRIPTION
Barend Mons slides from #ISMB 2014: Trends in data publishing. Talk 3 in the "What Bioinformaticians need to know about digital publishing beyond the PDF2" workshop at ISMB 2014, Boston, 16th July 2014TRANSCRIPT
Trends in Datapublishing
Barend Mons
Simplified eScience
RO’sAll Core Legacy Information +
WorkFlows
User
New datase
t
New Insights
X
AREAL SURVEY DEEP EXCAVATION
‘Why would I believe this association’???
2005, 6:142
Why I gave up spending most of my energy on text mining years ago
Data loss is real and significant…
Nature news, 19 December 2013
…and so is Data growth
The Data cycle in eScience
6
Prof. Carole Goble
www.datafairport.org
F
A
I
R
Findable:- PID for each concept used- PID assignment (authorities)- ARTA-service
Accessable:- Machines can Map (IMS-service)- License on data elements- Authentication/Authorization
Interoperable:- Machines understand data- Download-link-data formats - Workflows (Research Objects)
Re-usable:- Functionally Interlinked- Harmonized- Citable and available for...
PID
'provenance' (user defined)
Data (elements)
Metadata (intrinsic)
A simplified diagram of a Digital (data) Object irrespective of technological choices and naming
PID
'provenance' (user defined)
Data (elements)
Metadata (intrinsic)
Digital Object Architecture s are Digital Objects
Nanopublications are Research ObjectsSome Research Objects are
PID\\\
Metadata (intrinsic)'provenance' (user
defined)
Data (elements)
Totally UNFAIR
PID
Metadata (intrinsic)'provenance' (user
defined)
Data (elements)
FindableUsable for Humans
PID
Metadata (intrinsic)'provenance' (user
defined)
Data (elements)
FAIR metadata
PID
Metadata (intrinsic)
'provenance' (user defined)
Data (elements)
FAIR data-restricted access
PID
Metadata (intrinsic)
'provenance' (user defined)
Data (elements)
FAIR data-Open Access
PID
Metadata (intrinsic)
'provenance' (user defined)
Data (elements)
FAIR data-Open Access/Functionally Linked
Data as increasingly FAIR Digital Objects
BYOD-01
15
16
17
Combine FANTOM5
&LOVD
16 TSS 10 Tissues
3 tissuesHeart muscle
Skeletal muscleCerebral Cortex
RNA detectedIn many more
tissues
25 TSS???
Repositories
Data Owners
(supp)data
Databases
ELIXIR FAIR Data Search Index
End-users
FAIR L2
ELIXIR semantic data repository
ELIXIRDataFAIRPort
ELIXIR federated data
FAIR L1
Search for datasets
Download data (sub)
sets in many formats (xml, rdf, json etc)
FAIR L3
FAIR L4
ASPs, Inhouse IT, Bioinformatics
Etc..
Tools &Applications
ElixirFin.
ElixirEsp.
ElixirNor.ElixirUKElixir
SWEElixirNL..ElixirFin.
ElixirEsp.
ElixirNor.ElixirUKElixir
SWEElixirNL..
3
1
2
4
Develop ELIXIR-NL
Engage key data owners
Training & Education
Develop Infrastructure &
service
Sustainable funding
Policy Alignment
1
2
3
6
5
4