Open access to biodiversity data: the speciesLink experience

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Open access to biodiversity data the
speciesLink experience

• Dora Ann Lange Canhos
• dora_at_cria.org.br

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How to promote data sharing?

• Cultural barriers (internet, informatics, )
• Technical limitations (interoperability,
  archiving, )
• Legal impediments (biosafety, access to
  biodiversity, )
• It doesnt only depend on the will to share
  data....
• Must be organized data models, standards,
  protocols...
• Must be feasible (doable)
• Must be planned adequate resources, expertise,
  infrastructure

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Working with data providers

• routine should not be disrupted
• they must have full control over their data
• participation must be easy
• they must be acknowledged
• they must also benefit from sharing their data

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speciesLink data providers biological collections
Linux MySQL
Win98 Biota
Win98 Access
COL 3
FreeeBSD PostgreSQL
Win2000 Brahms
COL 4
COL 2
COL 5
COL 1
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program
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Challenges

• Integrate data from
• different taxonomic groups
• distributed in different collections
• Regardless of
• where the collections are located
• what software the collections uses
• the Internet connectivity available
• the expertise available
• Without changing the routine
• Maintaining full control of data by the
  collection
• Not expensive (open source and free software)
• Integrated with other networks (local and
  international)

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DiGIRPortal (Java)
speciesLink site Presentation Layer
Systems Architecture
Perl
Fast and stable connectivity
Slow or unstable connectivity
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Collections database
Database available on-line
DarwinCore data model
Mapping data fields
Filter for sensitive data
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DiGIRPortal (Java)
speciesLink site Presentation Layer
System Architecture
Perl
Fast and stable connectivity
Slow or unstable connectivity
Collection C
Collection B
Data
SOAP client
Data
SOAP client
SQL
SQL
CollectionManagementSystem
CollectionManagementSystem
Data Repository
Data Repository
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Data Migration Client

• Platform independent (java)
• Connects to any database accessible via JDBC
• (simple text files are also supported)
• Complete control over data
• Low traffic
• Possibility to filter sensitive data using a
  regular expression

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Other Applications

• data cleaning
• collection profiles
• indicators
• ecological niche modeling

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Data cleaning

• species name
• georeferencing

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Collection profile ...
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Indicators
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18,727 (2.63)
592,185 (83,28)
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Ecological niche modeling

• See demonstration of openModeller with Tim
  Sutton, Renato De Giovanni,

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The speciesLink network
research
education
nomenclature taxonomy
descriptivedata
Decision making
primary data
modeling
Data quality
maps
Biological collection
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Building data infrastructure
is necessarily a collaborative effort
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• http//splink.cria.org.br
• dora_at_cria.org.br

Obrigada