Bioinformatics


Who are we?

We develop the foundations and practical techniques for filtering information from the large volumes of data produced by emerging high-throughput biomedical technologies, in particular high throughput sequencing technologies, often referred to as Next Generation Sequencing (NGS), but also a range of other, more cost effective technologies.

Our aim is to develop information technology which uses molecular biology data for the improvement of health. Advances in molecular profiling technologies have resulted in large quantities of data being generated for a range of human diseases. The key challenge is to systematically analyze these diverse datasets to deepen our understanding of the molecular basis of disease, and to improve diagnosis and prognosis. For complex diseases, it is crucial to be able to simultaneously utilize genomic information and clinical data for accurate diagnosis. We focus on major killers such as cancer, diabetes and heart disease, where we integrate information in a clinical setting to build predictive models.

NICTA Bioinformatics now has its own subdomain and website where more information can be found. Follow the links below.

  • bioinformatics.resarch.nicta.com.au
  • NICTA Bioinformatics People
  • NICTA Bioinformatics Software
  • NICTA Bioinformatics Publications
  • Featured Software


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    Gossamer

    A Space-Efficient Genome Assembler

    Gossamer is an application for the de novo assembly of genomes from fragments of DNA that specifically attacks the question of scalability. The advantage of Gossamer is that large data sets can be assembled on computers with small amounts of memory.

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    is-rSNP

    in silico regulatory SNP detection
    is-rSNP is a software tool which predicts whether a SNP is an rSNP. For a given SNP, and using a statistical framework, is-rSNP can successfully predict the set of TFs for which binding is affected. Recent enhancements to the algorithm provide the statistical power to scan large numbers of SNPs, making it suitable to use to screen all associated SNPs output by a typical GWAS.

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    Xenome

    A Tool for Xenograft Sequencing
    Xenograft sequencing has many associated difficulties. Shotgun sequence read data derived from xenograft material contains a mixture of reads arising from the host and reads arising from the graft. Xenome is an application for classifying the read mixture to separate the two, allowing for more precise analysis to be performed.

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    GWIS

    Multivariate GWAS analysis
    GWIS cuts the computational time for analyzing all pairs of SNP interactions from months to minutes on commodity computers. The tool also has the ability to handle ternary interactions providing an unprecedented capability for investigation of complex diseases.

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NICTA Bioinformatics Authored Papers is a group in Biological Sciences, Computer and Information Science, Mathematics on Mendeley.