Phylodynamics for Single Cell Genomics . This project generates the mathematical framework required to look at single cell data in developmental systems and tissues. All cells in a multi-cellular organism derive from a single ancestral cell, generally the fertilised egg cell. Phylodynamics provides a framework to analyse and model this data, by connecting the shared ancestry of cells in an organism to the cell population and tissue dynamics. By developing the mathematical and statistical foundat ....Phylodynamics for Single Cell Genomics . This project generates the mathematical framework required to look at single cell data in developmental systems and tissues. All cells in a multi-cellular organism derive from a single ancestral cell, generally the fertilised egg cell. Phylodynamics provides a framework to analyse and model this data, by connecting the shared ancestry of cells in an organism to the cell population and tissue dynamics. By developing the mathematical and statistical foundations for the analysis of single cell data in a phylodynamic framework we will establish a powerful new computational tools for the analysis of tissues and developmental processes. Read moreRead less
Statistical methods for detection of non-coding RNAs in eukaryote genomes. Understanding how eukaryotic cells work is a major goal of 21st century biology. A crucial step will be to catalogue the functional components of eukaryotic genomes. Australian researchers must be involved in this process at an early stage, in order to maximise commercial opportunities, attract quality researchers and position ourselves for further advances. This project will make major contributions to international effo ....Statistical methods for detection of non-coding RNAs in eukaryote genomes. Understanding how eukaryotic cells work is a major goal of 21st century biology. A crucial step will be to catalogue the functional components of eukaryotic genomes. Australian researchers must be involved in this process at an early stage, in order to maximise commercial opportunities, attract quality researchers and position ourselves for further advances. This project will make major contributions to international efforts in this area, via the development of statistical methods for segmenting genomes, classification of those segments, and study of the resulting classes. In the long term, enhanced understanding of eukaryotic cells will lead to breakthroughs in biology, and to medical, pharmaceutical, agricultural and scientific advances.Read moreRead less
Mathematical modelling in developmental biology. Modern observational techniques in biology and medicine generate a wealth of genetic and molecular detail. Mathematical modelling integrates and synthesises this information to provide insight into how complex biological processes are coupled to produce experimentally observed behaviour. Mathematical modelling generates experimentally testable predictions that can be used to verify the validity of the models. This program is dedicated to exciting ....Mathematical modelling in developmental biology. Modern observational techniques in biology and medicine generate a wealth of genetic and molecular detail. Mathematical modelling integrates and synthesises this information to provide insight into how complex biological processes are coupled to produce experimentally observed behaviour. Mathematical modelling generates experimentally testable predictions that can be used to verify the validity of the models. This program is dedicated to exciting opportunities for advancing our knowledge of normal and abnormal developmental processes, especially in embryonic growth. Understanding these processes will lead to prediction and treatment of congenital disorders and contribute to a healthy start to life. Read moreRead less
Innovative mathematical modelling to determine incorporation of gene therapy in different cell lineages; Human Immunodeficiency Virus (HIV) as a model setting. Gene therapy is a promising therapeutic that is being developed to address genetic diseases and viral infections such as Human Immunodeficiency Virus (HIV). This project will produce mathematical models of how gene therapy delivered to one type of cell can differentiate into the desired end target and impact disease.
Building macroscale models from microscale probabilistic models. Spatial patterns arise in biological and physical processes. Understanding how local individual-based functions, such as movement and interactions between individuals, give rise to global spatial distributions and patterns in populations of individuals is generating much interest. Probabilistic agent-based models provide information about the movement of individuals, whereas continuum models provide information about the global pro ....Building macroscale models from microscale probabilistic models. Spatial patterns arise in biological and physical processes. Understanding how local individual-based functions, such as movement and interactions between individuals, give rise to global spatial distributions and patterns in populations of individuals is generating much interest. Probabilistic agent-based models provide information about the movement of individuals, whereas continuum models provide information about the global properties, such as spread of populations. This project will provide tools for determining the connection between the two types of models, thereby linking the behaviour on microscopic and macroscopic scales.Read moreRead less
Modelling with stochastic differential equations. We will develop methodology for modelling and analysis of phenomena subjected to random and uncertain influences, such as behaviour of investors in the market, evolution of economy, values of stocks and ant colonies. This methodology will enable scientists to achieve more accurate description and analysis of their models and provide better understanding of these phenomena. Creating the tools for understanding such complex systems will have far re ....Modelling with stochastic differential equations. We will develop methodology for modelling and analysis of phenomena subjected to random and uncertain influences, such as behaviour of investors in the market, evolution of economy, values of stocks and ant colonies. This methodology will enable scientists to achieve more accurate description and analysis of their models and provide better understanding of these phenomena. Creating the tools for understanding such complex systems will have far reaching benefits both nationally and internationally and will allow Australia to strengthen its position in international research. The project will also provide for postgraduate training and international scientific exchange.Read moreRead less
Statistical Methods for Discovering Ribonucleic acids (RNAs) contributing to human diseases and phenotypes. Identifying the causative genetic factors involved in quantitative phenotypes and diseases is a major goal of biology in the 21st century and beyond. A crucial step towards this goal is identifying and classifying the functional non-protein-coding Ribonucleic acids (RNAs) encoded in the human genome. This project will make major contributions to international efforts in this area by identi ....Statistical Methods for Discovering Ribonucleic acids (RNAs) contributing to human diseases and phenotypes. Identifying the causative genetic factors involved in quantitative phenotypes and diseases is a major goal of biology in the 21st century and beyond. A crucial step towards this goal is identifying and classifying the functional non-protein-coding Ribonucleic acids (RNAs) encoded in the human genome. This project will make major contributions to international efforts in this area by identifying RNA molecules that contribute to quantitative phenotypes including susceptibility to disease. As such, it will directly benefit fundamental science via the discovery and classification of new molecules. Indirectly, it will lead to breakthroughs in biology, and consequently to major medical and pharmaceutical advances in the diagnosis and treatment of genetic disease.Read moreRead less
Stochastic systems with applications to Biology and Finance. This project is concerned with stochastic systems. These mathematical systems, which are controlled by statistical uncertainty and variability, have profound importance in the fields of biology and finance. They are recognised worldwide as being of primary scientific importance. Important questions to be examined are: 1) Branching processes in DNA Polymerase Chain Reaction, 2) long term stationarity in metastable systems, and 3) Sto ....Stochastic systems with applications to Biology and Finance. This project is concerned with stochastic systems. These mathematical systems, which are controlled by statistical uncertainty and variability, have profound importance in the fields of biology and finance. They are recognised worldwide as being of primary scientific importance. Important questions to be examined are: 1) Branching processes in DNA Polymerase Chain Reaction, 2) long term stationarity in metastable systems, and 3) Stochastic Volatility in Finance. The answers to these questions will underpin the statistical theory for potential breakthroughs in the respective areas. This project will contribute to the theory and applications of Stochastic Processes, as well as modelling in biology and finance.Read moreRead less
Discovery Early Career Researcher Award - Grant ID: DE160100227
Funder
Australian Research Council
Funding Amount
$355,481.00
Summary
Experimentally validated multiphase mathematical models of leg ulcers. The project is designed to develop mathematical models of the complex biological processes of leg ulcer formation and healing. The project intends to combine mathematical techniques from fluid dynamics, mathematical biology, numerical analysis and statistical inference to develop novel, multiphase, validated mathematical models that capture the complex spatiotemporal evolution of cellular and chemical species during the forma ....Experimentally validated multiphase mathematical models of leg ulcers. The project is designed to develop mathematical models of the complex biological processes of leg ulcer formation and healing. The project intends to combine mathematical techniques from fluid dynamics, mathematical biology, numerical analysis and statistical inference to develop novel, multiphase, validated mathematical models that capture the complex spatiotemporal evolution of cellular and chemical species during the formation and healing of a leg ulcer – biological processes which are currently poorly understood. The mathematical models are expected to provide new insight into the underlying biological mechanisms of leg ulcers and may ultimately improve management of chronic wounds.Read moreRead less
Can an anti-HIV gene in blood stem cells protect from immune depletion by HIV? Approximately 15,000 individuals in Australia are currently HIV infected. Gene therapy has the capacity to remove antiretroviral treatment related issues, dramatically decrease treatment costs and simplify treatment of HIV.
In this study we will model a new approach to treat HIV in which the patient's own cells are used as the therapy by incorporating an anti-HIV gene. These cells are then re-introduced into the p ....Can an anti-HIV gene in blood stem cells protect from immune depletion by HIV? Approximately 15,000 individuals in Australia are currently HIV infected. Gene therapy has the capacity to remove antiretroviral treatment related issues, dramatically decrease treatment costs and simplify treatment of HIV.
In this study we will model a new approach to treat HIV in which the patient's own cells are used as the therapy by incorporating an anti-HIV gene. These cells are then re-introduced into the patient.
The strong mathematical focus of this project, and its application to a promising approach against HIV, will place Australia at the forefront of the mathematics of gene research and contribute to the National Priority Area of Promoting and Maintaining Good Health and the Priority Goal of Preventative Healthcare.
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