1. ICIS - The International Crop Information System - A Workshop Report
Jörn Vorwald
Institute of Plant Genetics and Crop Plant Research Gatersleben
Corrensstraße 3, D Gatersleben,

2. Outline
What is ICIS?
What is ICIS?
What is new in ICIS?
What is new in ICIS?
What is ICIS?
What is ICIS?

3. What is ICIS?

4. What is ICIS? International Crop Information System
Graham McLaren, IRRI:
It’s a community – an alliance of partners collaborating on development and deployment of crop information systems
The goal is to pool intellectual and physical resources to create a generic crop information platform
Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

5. What is ICIS and what it is not (yet)?
ICIS homepage:
a database system for management and integration of global information on genetic resources and crop improvement
allows ambiguous germplasm identification, tracing pedigree information, integration between genetic resources, breeding, characterisation, evaluation, and utilisation of data
being developed by genetic resource specialists, crop scientists, and information technicians
implemented separately for each crop
It is not
A gene bank information system
A plant data warehouse
Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

6. ICIS partners (by G. McLaren)
Developers
CIMMYT, ICARDA, IRRI
Grain Biotech Australia
VIDA
SPARC
Nunhems
University of Queensland
Users
MARDI
East West Seed Co.
Bayer Cropscience/Bioscience
University of Agricultural Sciences, Bangalore
Philrice, Philipines
CNRRI, China
Ubon RRC, Thailand
SARSBN
CIAT
IITA
...
Alliances
The Generation Challenge Program
SINGER
Germinate
Gramene
Phenotype Ontology Consortium
IRFGC
Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

7. Where is IPK? First contact in 2002: visit at the developer’s workshop
Is ICIS a useful tool for IPK gene bank?
Decision in summer 2002 after test installation: It is not.
Pros
International developer community
Successful implementations around the world
Flexible and easy C+E data input and access
Contras:
No gene bank module
Focused on single crops
Redundant data management
Problems with installation
Today: Was it the wrong decision?
‘Virtual’ enlargement of development capacities
Open source project with flexible database layer
Gene bank module is coming up
Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

8. What is new in ICIS?

9. Software development of ICIS (by A. Cosico & A. Portugal, IRRI)
Enhancement of existing ICIS Applications
SetGen
Workbook
Browse
GMSSearch
Retriever
ICISForms
Implementation of the Invetory Tracker
Initial implementation of Genetic Resource Information Management System
Porting of the ICIS32.dll in .NET to interoperate with web services
Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

10. New Platform (by A. Cosico & A. Portugal, IRRI)
ICIS4  ICIS5/Java
Reimplementation of some major components
Moving core ICIS APIs (GMS/DMS) from client to server
Integrating a high-performance object-oriented persistence framework
Implementing web services (SOAP/XML) for programming language-agnostic access to core APIs and integration with existing Delphi, VB, FORTRAN, etc. front ends
Developing a Web-based portal for browser access
Code management using GForge/CVS
Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

11. ICISForms (by M. A. Sallan, IRRI) GEMS (by T. Metz, IRRI)
New modules
ICISForms (by M. A. Sallan, IRRI)
creates a GUI on the fly
GEMS (by T. Metz, IRRI)
manages genotype data
SQL code generator for queries on the fly
towards data warehouse functionality
Marker Assisted Selection (by F. Clarke, SPARC)
more a need: a tool for support
ICIS QU-GENE Link (by I. DeLacy, UQ)
just another need: integrating ICIS with analysis tools
Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

12. Location data quality in ICIS (by I. Mukema, IRRI)
Other reports I
Location data quality in ICIS (by I. Mukema, IRRI)
data quality dimensions modeled
IRGCIS migration to ICIS (by R. Herrera, IRRI)
IRRI‘s GBIS with new functions
Replacing Oracle based system by open source due to costs
DIVA-GIS (by R. Simon, CIP)
Tool for PGR management – introducing GIS functionality
ICIS connectivity planned for 2005
Data abstraction I (by J. Vorwald, IPK)
introducing object-oriented approach to RDBMS
Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

13. Data abstraction II (by J. Vorwald, IPK)
Other reports II
Data abstraction II (by J. Vorwald, IPK)
towards a PGR ontology
Managing pedigrees (by S. Micallef, UQ / S. Yates, SPARC / G. McLaren, IRRI)
problems with data update
Database platform experiences (by A. Portugal, IRRI / C. aan den Boom & J. Heber, Nunhems / T. Metz, IRRI)
MS-Access, MySQL, Oracle, PostgreSQL
Data abstraction III (by R. Bruskievich, IRRI / I. DeLacy, UQ)
data management concepts: global identifiers, ontology & domain models
ontology of plant genealogy
Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

14. What is ICIS?

15. What ICIS is and what will it be?
An open source community and project
A gene bank information system
A plant data warehouse
Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

16. Why should we deal with ICIS?
IPK as part of plant resource research community
A lot of benefits from collaboration
developments and solutions
‘virtual’ enlargement of development capacities
A little bit to give
visualisation and database representation of graphs? for pedigrees (represented as trees, but real graphs)
query builder – database and Java implementation
a lot of theory: contributions to ontologies and data quality
experiences: data migration, 3-tier-software- architecture
Jörn Vorwald: ICIS Workshop 2005 report - Summary

17. ICIS

18. Thank you
End