New South Wales Systems Biology Initiative

The New South Wales Systems Biology Initiative was established to build capabilities and expertise in bioinformatics for genomics and proteomics, and to disseminate this expertise through collaboration.

As a part of Bioplatforms Australia we provide collaborative bioinformatics expertise and services to users of NCRIS-funded genomic and proteomic facilities, specifically the Ramaciotti Centre for Genomics, the Bioanalytical Mass Spectrometry Facility (BMSF), the Australian Proteome Analysis Facility (APAF) and Southern Cross Plant Science at Southern Cross University.

We also provide collaborative bioinformatics support to groups at the University of NSW and elsewhere. Data analysis expertise is offered in the following ‘omics areas:

Systems Biology & Integration

  • Contextualisation of data into ontological classes, biochemical and metabolic pathways and networks
  • Construction of genetic and protein-protein interaction networks
  • High dimensionality visualisation using custom and off the shelf tools
  • Interpretation of transcriptomic and proteomic data in a clinical context (epidemiological or individual patients)


  • LC-MS-MS experimental design
  • Data collation and summation from large LC-MS-MS experiments
  • Analysis of data from comparative studies using isotopic labels
  • Univariate and multivariate statistical analysis of protein expression data from LC-MS-MS analysis and 2-D gels
  • Interpretation and abstraction of protein identification data
  • Extraction and normalisation of data from 2-D gels to assay inter-experiment reproducibility

Genomics & Transcriptomics

  • Microarray experimental design – essential to ensure the analysis of adequate sample numbers and replicates to generate valid data
  • Data extraction and normalisation – to ensure inter-experiment reproducibility
  • Univariate and multivariate statistical analysis of gene expression data – to find genes or groups of genes that are similarly or differentially expressed
  • Genomic and EST sequence assembly, annotation and analysis
  • Data interpretation in genetic context, including the Human Haplotype
  • Data analysis, storage support and sequence analysis for new generation sequencing technology

* Services are provided free of charge to researchers in non-profit organisations within the state of New South Wales.