Understanding somatic mutation in plants: new methods, new software, new data. Somatic mutations accumulate as plants grow, affecting everything from short-term ecological interactions to long-term evolutionary dynamics. These mutations have important consequences for plant industry and conservation, but because they are so hard to measure almost nothing is known about them. This project aims to develop new methods and software to detect, analyse, and compare the genome-wide history of somatic m ....Understanding somatic mutation in plants: new methods, new software, new data. Somatic mutations accumulate as plants grow, affecting everything from short-term ecological interactions to long-term evolutionary dynamics. These mutations have important consequences for plant industry and conservation, but because they are so hard to measure almost nothing is known about them. This project aims to develop new methods and software to detect, analyse, and compare the genome-wide history of somatic mutation in individual plants, providing an unprecedented level of detail into an important but understudied source of biological variation. By applying these methods to an iconic experimental population, This project aims to provide the first insights into the genome-wide causes and consequences of somatic mutation in plants.Read moreRead less
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
Discovery Early Career Researcher Award - Grant ID: DE190100491
Funder
Australian Research Council
Funding Amount
$418,386.00
Summary
Linking genomic changes to the generation of biodiversity. This project aims to provide a suite of theories, methods and software to enhance our understanding on how the generation of variation at molecular level is linked to the generation of species richness at lineage level. This new approach tests various ways that molecular changes are manifested as patterns of diversification, as revealed by genomic data analysed at the lineage level in phylogenetic studies. Expected outcomes of this proje ....Linking genomic changes to the generation of biodiversity. This project aims to provide a suite of theories, methods and software to enhance our understanding on how the generation of variation at molecular level is linked to the generation of species richness at lineage level. This new approach tests various ways that molecular changes are manifested as patterns of diversification, as revealed by genomic data analysed at the lineage level in phylogenetic studies. Expected outcomes of this project add to a growing body of evolutionary theory and provide practical phylogenetic tools for future analyses. These should benefit Australia by improving our understanding on the formation of Australia’s biodiversity hotspots.Read moreRead less
Learning Software Security Analysers with Imperfect Data. This project aims to systematically investigate next-generation learning-based software security analysis to detect vulnerabilities in real-world large-scale software. The expected learning-based foundation will support the handling of imperfect data in order to provide a precise, scalable and adaptive security analysis of the critical software components, thus capturing important security vulnerabilities missed by existing approaches. Th ....Learning Software Security Analysers with Imperfect Data. This project aims to systematically investigate next-generation learning-based software security analysis to detect vulnerabilities in real-world large-scale software. The expected learning-based foundation will support the handling of imperfect data in order to provide a precise, scalable and adaptive security analysis of the critical software components, thus capturing important security vulnerabilities missed by existing approaches. The success of this project will further enhance the international competitiveness of Australian research in this important field and will benefit any Australian industry and business where software systems are deeply-rooted, such as transportation, smart homes, medical devices, defence and finance.Read moreRead less
Evolution and functional impact of gene silencing by hairpin derived RNAs. This project aims to study RNA-mediated gene silencing in genome evolution. RNA interference (RNAi) has been widely used as an experimental tool since its Nobel Prize-winning discovery in 1998, but little is known about endogenous RNAi or its evolution. This project uses bioinformatics, high-throughput sequencing and molecular approaches to study hpRNAs, a class of small interfering RNAs, their adaptive evolution across f ....Evolution and functional impact of gene silencing by hairpin derived RNAs. This project aims to study RNA-mediated gene silencing in genome evolution. RNA interference (RNAi) has been widely used as an experimental tool since its Nobel Prize-winning discovery in 1998, but little is known about endogenous RNAi or its evolution. This project uses bioinformatics, high-throughput sequencing and molecular approaches to study hpRNAs, a class of small interfering RNAs, their adaptive evolution across fly species and vertebrates, and their functional effect on testis morphogenesis and distortion of female/male sex-ratio. The project also studies splicing-dependent small RNAs and miRNA-target interaction. This research could have applications from animal development to human pathology.Read moreRead less
Evolutionary analyses of short-read sequences from pooled samples. This project aims to provide biologists with a means of making sound, statistical inferences about evolution by using next-generation data from mixed samples. When biologists make statements about history, they use evolutionary trees, frequently reconstructed from the genetic data of many individuals. Next-generation sequencing provides large amounts of genetic data at low cost, but biologists have difficulty using these data for ....Evolutionary analyses of short-read sequences from pooled samples. This project aims to provide biologists with a means of making sound, statistical inferences about evolution by using next-generation data from mixed samples. When biologists make statements about history, they use evolutionary trees, frequently reconstructed from the genetic data of many individuals. Next-generation sequencing provides large amounts of genetic data at low cost, but biologists have difficulty using these data for evolutionary research, particularly when they sample mixtures of DNA from many individuals. The anticipated value of this project is that it allows evolutionary biologists to capitalise on the benefits of next-generation sequencing, without sacrificing their ability to make reliable inferences about history.Read moreRead less
The Establishment Of An Australian Wide Monthly Periodical (the Fisheries Software Register) For The Dissemination And Standardization Of Computer Software In Fisheries And Related Sciences
Funder
Fisheries Research and Development Corporation
Summary
Objectives: 1. Develop a fisheries software register through which fisheries scientists can advertise the existence of, or the need for, a particular computer program
Discovery Early Career Researcher Award - Grant ID: DE120101127
Funder
Australian Research Council
Funding Amount
$375,000.00
Summary
An integrated statistical genetics framework for breeding superior wheat varieties. Genetic studies in agriculture are rapidly increasing in size and complexity in pursuit of genes behind desirable traits such as yield and water use efficiency. This project will address the need for efficient statistical methods to analyse genetic data and thus enable production of wheat varieties that will contribute to Australian food security.
Objectives: 1. To develop a software program (called Abalone Management System) for use by Australian abalone farm managers to monitor all animals and events on a farm.
The Development Of SAFS, FishNames, FRDC, FishFiles And Seafood Standards Websites And Web Database
Funder
Fisheries Research and Development Corporation
Funding Amount
$1,009,770.00
Summary
To get around the above issue the majority of the data (content) should be consolidated in one database. This will provide considerable savings in management, and allow for far greater integration in how the data is translated into communication products. The external sites for which the FRDC has acquired responsibility are located outside on a number of disparate hosting services on different systems. Maintenance and management of these sites remains costly and fragmented.
To get around the above issue the majority of the data (content) should be consolidated in one database. This will provide considerable savings in management, and allow for far greater integration in how the data is translated into communication products. The external sites for which the FRDC has acquired responsibility are located outside on a number of disparate hosting services on different systems. Maintenance and management of these sites remains costly and fragmented.
Objectives: 1. Create a single, scalable, trusted source of truth: an authoritative source of data and rich information base for the fisheries and aquaculture in Australia. 2. The systems allow for collection (input) of data from external parties and sharing (output) of the information in different formats including aggregated data for use in communication products. 3. Enhance the web system to allow for greater use and integration of data across the sites Read moreRead less