Rice gene machine information management system
CSIRO has developed software and processes to help biologists, lab managers and technicians manage the mass of data generated by large-scale, high-throughput plant mutagenesis experiments.
13 March 2006 | Updated 14 October 2011
Large-scale mutagenesis is an effective strategy for understanding gene function in plants. By mutating, cultivating and phenotyping mutants, researchers can develop insights into the role of different genes.
Mutagenesis experiments typically involve thousands of lines, each representing mutation in a different genomic region.
For these experiments to succeed, seed stocks and plants must be tracked and phenotypic information must be captured and analysed.
This places a massive information burden on biologists, lab managers and technicians. Current laboratory information management systems do not meet the specialised needs of mutagenesis research.
CSIRO’s Rice Gene Machine Information Management System (RGMIMS) provides a framework to support core lab processes in plant functional genomics.
Designed with biologists’ requirements in mind, it provides an easy to use, unambiguous and intuitive interface to experimental data.
RGMIMS introduces a new level of accountability and repeatability into the lab by tracking all aspects of an experiment.
Today’s plant experiments can place a massive information management burden on researchers.
Traditional lab notebook or standalone spreadsheet methods create a cumbersome chaos of unshare-able, unlinked and error-prone data. In contrast, RGMIMS:
enhances data accuracy by providing a single, objective information source
improves data quality by enforcing consistency through error-checking based on lab procedures
increases accessibility to information via the Web, both in the lab and in the field, and with PC and PDA devices
increases productivity through rapid entry of bulk information and elimination of double-entry
enables greater insight by integrating experimental data to give researchers a holistic picture of line-seed-genealogy-phenotype-transformation
creates linkages between experimental data and external data sources, including:
can be used with existing tools through export and import to Microsoft Excel and other software
improves lab efficiency and provides specimen traceability through barcode tracking
gives the user the flexibility to define attributes such as units of measurement, plant/seed storage locations and layouts.
CSIRO is seeking:
partners and pathways to transfer RGMIMS to potential users including plant breeders, cereal scientists and lab managers
licensing opportunities for RGMIMS and partnering opportunities to provide customised laboratory information management solutions.
RGMIMS was developed by CSIRO Mathematical and Information Sciences in collaboration with CSIRO’s Rice Functional Genomics group and with support from the NSW Agricultural Genomics Centre.
Find out more about CSIRO’s work in Grains.