Visual Analytics for Next Generation Sequencing. Next-generation sequencing technologies have brought a revolution in biology and healthcare, while taxing the ability of scientists and clinicians to identify and process relevant data, to make sense of it all and communicate it to others in a concise and meaningful way. This project aims to tackle this problem through fundamentally new approaches to data selection and visualisation at very large scale, actively encoding for insight into underlyin ....Visual Analytics for Next Generation Sequencing. Next-generation sequencing technologies have brought a revolution in biology and healthcare, while taxing the ability of scientists and clinicians to identify and process relevant data, to make sense of it all and communicate it to others in a concise and meaningful way. This project aims to tackle this problem through fundamentally new approaches to data selection and visualisation at very large scale, actively encoding for insight into underlying biological and biomedical processes, bringing sustainable discovery of new relationships and variations within the data. The project aims to support new approaches to medical diagnosis and treatment, and offer crucial lessons to address the broader challenge of understanding large, complex data sets.Read moreRead less
Searching for near-exact protein models. This project aims to develop novel and efficient heuristic-based algorithms leading to near accurate protein tertiary structure models. Knowledge about protein structures is fundamental to our understanding of living systems. The progress on experimental determination of these structures has been extremely limited and remains an open challenge in molecular biology. Computational prediction of protein structures from sequences is emerging as a promising ap ....Searching for near-exact protein models. This project aims to develop novel and efficient heuristic-based algorithms leading to near accurate protein tertiary structure models. Knowledge about protein structures is fundamental to our understanding of living systems. The progress on experimental determination of these structures has been extremely limited and remains an open challenge in molecular biology. Computational prediction of protein structures from sequences is emerging as a promising approach, but its accuracy is far from satisfactory. The software systems developed in this project will be used in structural identification of target proteins in drug design. This will make drug design process more efficient, saving time and cost, potentially saving lives.Read moreRead less
Investigating Post-transcriptional Gene Regulation In Cancer
Funder
National Health and Medical Research Council
Funding Amount
$645,205.00
Summary
In this program, I will enhance our understanding of cancer gene regulation and provide novel avenues for the treatment of aggressive tumours. Using own data and that from collaborators, I will determine patterns of gene regulation in blood cancers and identify markers that predict disease outcome. I aim to understand how gene regulation can transform healthy cells into tumour cells and whether personalised treatment can kill tumour cells more effectively and prevent relapse and metastasis.
Preparing Australia For Genomic Medicine: A Proposal By The Australian Genomics Health Alliance
Funder
National Health and Medical Research Council
Funding Amount
$25,000,000.00
Summary
The sequencing of the human genome brings the possibility of more accurate identification of the underlying basis of many diseases. This technology has moved so rapidly, however, that clinical access has been limited. In this application, a national alliance of clinicians, researchers, health economists and policymakers will evaluate the case for clinical genomics across inherited disease and cancer, determine how best to deliver this to the patient and train a capable workforce.
Sequencing and assembling microbial community metagenomes in real-time. This project aims to assemble metagenomes directly from environmental samples using nanopore sequencing. Short-read approaches to metagenomics cannot assemble mixed genomes from an environmental sample, so focus on describing which species and genes are present. Long-read nanopore sequencing enables the assembly of full genomes of multiple species in a sample. Assembling complete genomes in important resources such as water ....Sequencing and assembling microbial community metagenomes in real-time. This project aims to assemble metagenomes directly from environmental samples using nanopore sequencing. Short-read approaches to metagenomics cannot assemble mixed genomes from an environmental sample, so focus on describing which species and genes are present. Long-read nanopore sequencing enables the assembly of full genomes of multiple species in a sample. Assembling complete genomes in important resources such as water and soil should lead to deeper understanding of the dynamics, variation and transfer of genetic material within these resources’ microbial communities, strategies to manage microbial diversity, and improved productivity and long-term sustainability for these resources.Read moreRead less
Understanding How Azithromycin Prevents Exacerbations In Severe Asthma
Funder
National Health and Medical Research Council
Funding Amount
$697,273.00
Summary
In some people with severe asthma, conventional inhaler treatments are not able to control the disease so there is a need for new treatment options. We have recently completed a large clinical trial which showed that very low doses of a common antibiotic help prevent asthma attacks in this situation. However, not much is known about how the antibiotic is working. This study will help us understand how the antibiotic is working and which people respond best.
Industrial Transformation Research Hubs - Grant ID: IH170100013
Funder
Australian Research Council
Funding Amount
$2,962,655.00
Summary
ARC Research Hub for Digital Enhanced Living. The ARC Research Hub for Digital Enhanced Living aims to address the growing challenges of aging people living in their own home or residential care. This will be through inventing new personalised medical technologies through an innovative approach, with a multi-disciplinary team leveraging diverse expertise. An enhanced capacity to create and deploy fit-for-purpose personalised health solutions will result in revenues from new and repurposed device ....ARC Research Hub for Digital Enhanced Living. The ARC Research Hub for Digital Enhanced Living aims to address the growing challenges of aging people living in their own home or residential care. This will be through inventing new personalised medical technologies through an innovative approach, with a multi-disciplinary team leveraging diverse expertise. An enhanced capacity to create and deploy fit-for-purpose personalised health solutions will result in revenues from new and repurposed devices, analytics and integration platforms. New jobs and improved care will see cost reductions, better use of resources and enhanced mental, physical and social well-being.Read moreRead less
'Fixed points': extending and deepening our understanding of mathematical and computational aspects of game theory. This work will extend and deepen our understanding of mathematical and computational aspects of game theory. It will produce computer code embodying new methods of solving systems of nonlinear equations, which is useful in many areas of applied research in economics, in other disciplines such as chemistry, and potentially in the analysis of business operations. The project will a ....'Fixed points': extending and deepening our understanding of mathematical and computational aspects of game theory. This work will extend and deepen our understanding of mathematical and computational aspects of game theory. It will produce computer code embodying new methods of solving systems of nonlinear equations, which is useful in many areas of applied research in economics, in other disciplines such as chemistry, and potentially in the analysis of business operations. The project will also deepen our understanding of the underlying mathematics of such systems, and of other mathematical foundations of economic research. One application will be a new measure of the relative power resulting from voting rules. Such measures assist the design of democratic institutions by allowing the designer to assess the fairness of the outcomes they produce.Read moreRead less
Special Research Initiatives - Grant ID: SR0567334
Funder
Australian Research Council
Funding Amount
$125,748.00
Summary
A Grid-Enabled National Archive of Nanostructural Imagery (GRANI). The Nanostructural Analysis Network Organization (NANO) is an Australian Major National Research Facility that provides access to a grid of advanced microscopic instruments for the nanostructural analysis of both physical materials and biological systems. The aim of this initiative is to provide the NANO community with a set of common, interoperable tools and services to enable more efficient, cost-effective storage, management, ....A Grid-Enabled National Archive of Nanostructural Imagery (GRANI). The Nanostructural Analysis Network Organization (NANO) is an Australian Major National Research Facility that provides access to a grid of advanced microscopic instruments for the nanostructural analysis of both physical materials and biological systems. The aim of this initiative is to provide the NANO community with a set of common, interoperable tools and services to enable more efficient, cost-effective storage, management, analysis and sharing of generated microscopic images, video and analytical data. The significance of the proposed middleware is that it will improve collaboration and reduce duplication across many disciplines, through a shareable, distributed national scientific image/video database.Read moreRead less
An extensible framework for analysis of Java language-based security conformance. Java is a programming language and platform running on 3 billion devices. While Java provides a sandbox-based security architecture within the Java Class Library to protect systems from untrusted code downloaded from Internet, it cannot defend against implementation bugs that occur in the Java Class Library. The goal of this project is to provide a formal model of the Java security architecture, which can be used b ....An extensible framework for analysis of Java language-based security conformance. Java is a programming language and platform running on 3 billion devices. While Java provides a sandbox-based security architecture within the Java Class Library to protect systems from untrusted code downloaded from Internet, it cannot defend against implementation bugs that occur in the Java Class Library. The goal of this project is to provide a formal model of the Java security architecture, which can be used by program analysers to identify faulty or insufficient security checks in the Java Class Library that may lead to the sandbox being bypassed.Read moreRead less