V irtual Biodiversity V iBRANT -infrastructure SEVENTH FRAMEWORK PROGRAMME A decadal view of biodiversity informatics: challenges and priorities Alex Hardisty, Dave Roberts, and the biodiversity informatics community* * 80 people took part in the open debate that led to this paper
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Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
A decadal view of biodiversity informatics: challenges and priorities Alex Hardisty, Dave Roberts, and the
biodiversity informatics community*
* 80 people took part in the open debate that led to this paper
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
A decadal view of biodiversity informatics: challenges and priorities Alex Hardisty, Dave Roberts, and the
biodiversity informatics community*
* 80 people took part in the open debate that led to this paper
“We are drowning in information, while starving for wisdom. The world henceforth will be run by synthesizers, people able to put together the right information at the right time, think critically about it, and make important choices” E. O. Wilson, Harvard
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
A decadal view of biodiversity informatics: challenges and priorities Alex Hardisty, Dave Roberts, and the
biodiversity informatics community*
* 80 people took part in the open debate that led to this paper
“We are drowning in information, while starving for wisdom. The world henceforth will be run by synthesizers, people able to put together the right information at the right time, think critically about it, and make important choices” E. O. Wilson, Harvard
Time to model all
life on Earth.
Purves et. al. (2013) Nature, 493: 295-297
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
An infrastructure to allow the available data to be brought into a coordinated coupled modelling environment, capable of addressing questions relating to our use of the natural environment, that captures the variety, distinctiveness and complexity of all life on Earth
A decadal view of biodiversity informatics: challenges and priorities Alex Hardisty, Dave Roberts, and the
biodiversity informatics community*
* 80 people took part in the open debate that led to this paper
The Grand Challenge for Biodiversity Informatics
To achieve it we need:To build user confidenceIntegrative flexible e-Science environmentsPredictive models across multiple scales, coupled
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
1. Open Data should be normal practice;
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
1. Open Data should be normal practice;2. Data encoding should
allow analysis across multiple scales;
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
1. Open Data should be normal practice;2. Data encoding should
allow analysis across multiple scales;
3. Infrastructure projects should devote significant resources to market the service they develop;
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
Courtesy of ‘Linking Global Names and Pro-iBiosphere’, 2013, D. J. Patterson
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The generation of important new insights while handicapped with limited technology, indirect measurement, and fuzzy data is the mark of scientific greatness.
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
11. Data fit for purposeData are received at face-value, examined and tested. If the user is satisfied, then the data will be applied.
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
12. Observational data infrastructure
Agriculture Systems
Climate Change
Forest Management
Invasion Biology
Urban Ecosystems
http://www.teamnetwork.org
http://www.earthobservations.org/geobon.shtml
http://www.eubon.eu
http://www.neoninc.org
http://mooreabiocode.org/
Moorea Biocode Project
http://www.ilternet.edu
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
To build user confidence
Thus far, all projects share a common problem of keeping services running after project funding ended
New models are needed
To create translational pipelines to industry adoption
To encourage institutional adoption for care and maintenance
For recognition of contribution other than through publication of academic papers
Stronger marketing and outreach
Invest more in up-skilling and hand-holding
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
Integrative flexible e-Science environmentsUsing standardised building blocks and workflows
Interoperable components
With access to data from multiple sources
Recognise different kinds of VRE
General-purpose / specialised / single scientific objective
- cf. chemistry laboratory vs forensics lab vs HIV vaccine lab
- BioVeL / AquaMaps and iMarine / CarbonWaterCloud
Must generate immediate benefit for users
Science driven, with scientists as active participants in creation of infrastructure
Functions people find useful: simple and intuitive
Technology invisible (disappears into background)
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
Predictive models across multiple scales
A new framework of methods, techniques, standards to bring about interoperability of data and models across different biological scales
From Genetic through species and ecosystem to landscape
Learn from Virtual Physiological Human and from Numerical weather prediction and climatology Edwards (2010). A Vast Machine
“General Ecological Models” Purves et al. (2013). doi:10.1038/493295a
Evolvable to incorporate new scientific insights
Re-analysis models
Making data we have global
Implies ‘inversion’ of existing infrastructure
‘inversion’ of existing infrastructure is about re-examining every element of data we have to re-construct the past biodiversity, as a guide and calibrator of models that can predict the future
Virtual BiodiversityViBRANT
-infrastructureSEVENTH FRAMEWORK PROGRAMME
Section 1: The fundamental backbone (getting the basics right)
Section 2: The next steps
Section 3: New tools
Section 4: The human interface
1. Why are names important? 2. How are names organised? 3. Which is the right name? 4. What is the name of that organism? 5. Can biodiversity studies be done without names? 6. Biodiversity data beyond names 7. To link resources we need identifiers 8. Centralised or networked services?
15. Data Sharing 16. Why do we need vocabularies and ontologies? 17. How would Knowledge Organising Systems help? 18. How easy is it to integrate data?
27. How do you aggregate the data you need? 28. How complete are the data? 29. How can we encourage virtual research
environments? 30. What can you do with your data in the future?
9. How to balance professional and non-professional contributions
10. Engagement of users 11. Who's who? 12. User identification 13. How do we ensure the right metadata are created
at the point of data generation? 14. Sustaining the physical infrastructure
19. Beyond Sharing and Re-use: the problem of scale 20. How reliable are the data? 21. What will the physical infrastructure look like?
22. How much of the legacy collections can be digitised? 23. How to generate more targeted and reliable data? 24. What role do mobile devices play? 25. How do you find the data you need? 26. How do you extract the data you need?
31. How can we give users confidence? 32. Who owns what? 33. What benefits come to contributors?