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James Watson Australian Animal Health Laboratory October 2013
CSIRO Animal Food and Health Sciences
STARS - Surveillance Integrating data across the Australian Laboratory Network.
Background
• Seven independent state Animal Health systems
• Commonwealth with overall international and trade role
• Four disparate LIMS platforms, eight if versions count…
• Communication between systems limited, manual
CSIRO
CSIRO
The Problem
• Long standing need to improve linkages between AAHL and state labs for animal health data management
• SCAHLS has been discussing for over a decade
• Some attempts to standardise LIMS – did not succeed
• Electronic interchange between different systems has been considered since the beginning
• Interchange project started by AAHL on behalf of SCAHLS
CSIRO
So: STARS
• STARS? - Sample Tracking And Reporting System
• Ability to electronically lodge submissions to AAHL
• Ability to receive results electronically
• Ability to track status of case
• Need to respect client confidentially / notification requirements, vary with jurisdiction
• Major concerns over aggregation of data
STARS Timeline
CSIRO
Pre-STARS STARS Phase I
ABIN STARS (Phase II)
STARS Phase III
Timeline: Phase I
CSIRO
Pre-STARS STARS Phase I
ABIN STARS (Phase II)
STARS Phase III
STARS Phase I
CSIRO
STARS DB
Case/Job Entry Tracking LEADDR
Entry LEADDR Tracking
Web Portal
• Stakeholder engagement
• Concept developed
• Web portal developed as
proof of concept
CSIRO
Core Functions • LIMS interchange • AAHL and State Labs – hub and
spoke • Standardised data model? • Managed communication
framework
Extended Functions • Link to other key stakeholders • Federated access
CSIRO
CSIRO
CSIRO
Timeline: Phase II
CSIRO
Pre-STARS STARS Phase I
ABIN STARS
(Phase II)
STARS Phase III
CSIRO
STARS and ABIN
• ABIN funded Phase II as Proof of Concept Project • Security – networks, federated access
• Extends concept to other biosecurity domains • Interoperability with other projects
STARS Phase II
CSIRO
STARS DB
Case/Job Entry Tracking LEADDR
Entry LEADDR Tracking
Web Portal
Web Service Send
message Receive message
•Allows electronic transfer of data between participating nodes
•Automated web service / message broker
•Data translation to solve standardisation dilemma
STARS Phase II
CSIRO
STARS DB
Case/Job Entry Tracking LEADDR
Entry LEADDR Tracking
Web Portal
Web Service Send
message Receive message
Node #1 DB
LIMS
STARS Engine
Node #1
STARS Phase II
CSIRO
STARS DB
Case/Job Entry Tracking LEADDR
Entry LEADDR Tracking
Web Portal
Web Service Send
message Receive message
Node #1 DB
LIMS
STARS Engine
Node #1
Node #2 DB
LIMS
STARS Engine
Node #2
STARS Phase II
Phase II - Development • STARS web service
- Web service and message broker implemented • STARS software
- Windows console application - User profile, service and backup maintenance - Field and pick list maintenance
- Windows service (STARS engine) - Sending web method - Receiving web method
• STARS schema - Versioned schema implemented
CSIRO
Data Model
• STARS engine provides translation to common data structure
• This also means a single data interface across all nodes
• Metadata standards extends interoperability • Data services: unique identifiers
• Integrating with medical ontologies
CSIRO
Hub and Spoke?
CSIRO
NT
WA
Tas Vic
NSW
QLD
AAHL
SA
…Mesh!
CSIRO
NT
WA
Tas Vic
NSW
QLD
SA
AAHL
Timeline: Phase III
Pre-STARS STARS Phase I
ABIN STARS (Phase II)
STARS Phase III
CSIRO
STARS Phase III
• Integration with other Systems.
CSIRO
National Lab Network
Quarantine
AAHL
International agencies: OIE /
FAO / WHO
Research
International Labs
NAHIS
NAMP
Incident Management
Other Key lab users
(e.g.wildlife)
STARS Architecture
Core Standard
LIMS #1
Incident management LIMS #2
Surveillance
STARS
STARS
STARS
STARS
Surveillance
NAHIS – National Animal Health Information System
• Manual submission
• Restricted data set
MOULD (Who thinks of these things anyway?)
• Upload via STARS
• Wider data set
eResearch Platforms
Integrated data systems present a single unified view of laboratory data.
• STARS
• MARS
• RDS – Data Access Portal
• Biosecurity Collaboration Platform (BCP)
• Electronic Lab Notebook
Thank you James Watson Research Program Leader Veterinary Investigation Leader Australian Animal Health Laboratory t +61 3 5227 5117 e [email protected] w www.csiro.au/dsr
CSIRO Animal Food and Health Sciences
Background Material Putting the pieces together
Data Models
STARS engine provides translation to common data structure
This also means a single data interface across all nodes
Metadata standards extends interoperability
• Integrating with medical ontologies
• Also developing linkages with Atlas of Living Australia
• Other international efforts
Data services: unique identifiers
CSIRO
CSIRO
AAHL Infrastructure
eResearch Platforms
Integrated data systems present a single unified view of laboratory data.
• STARS
• MARS
• RDS – Data Access Portal
• Biosecurity Collaboration Platform (BCP)
• Electronic Lab Notebook
eResearch Platforms
Structure
CSIRO
LIMS A
LIMS B
STARS Node A
STARS Node B
Structure
CSIRO
LIMS A
LIMS B
STARS Node A
STARS Node B
Structure
CSIRO
Lab A Lab B
LCC LCC
Field Field Field Field
SCC
Structure
CSIRO
Lab A Lab B
Incident Management
A
Incident Management
B
Handheld Handheld
