Statistical methods and tools for integrative microarray analysis. Tools used for biological and medical research have been evolving and there has been an increase in high-throughput technologies such as genome sequencing and DNA microarray. The growing number of entries and the increasing availability of public microarray repositories and other sequence databases have generated the new challenge of developing tools to efficiently integrate data by different research groups. This research provi ....Statistical methods and tools for integrative microarray analysis. Tools used for biological and medical research have been evolving and there has been an increase in high-throughput technologies such as genome sequencing and DNA microarray. The growing number of entries and the increasing availability of public microarray repositories and other sequence databases have generated the new challenge of developing tools to efficiently integrate data by different research groups. This research provides new statistical methods to integrate different data sets. Its application in the biomedical field will allow researchers to effectively interpret the myriad of data generated within the community.Read moreRead less
Quantitative dynamics of functional magnetic resonance imaging. By modeling and verifying the dynamics of brain activity and blood flow that underlie functional magnetic resonance imaging (fMRI), this project will yield improved scientific outcomes and imaging sensitivity. The new data analysis techniques and technologies that result will yield potentially patentable intellectual property, and will increase the standing of Australia in this rapidly developing field, including via links being bu ....Quantitative dynamics of functional magnetic resonance imaging. By modeling and verifying the dynamics of brain activity and blood flow that underlie functional magnetic resonance imaging (fMRI), this project will yield improved scientific outcomes and imaging sensitivity. The new data analysis techniques and technologies that result will yield potentially patentable intellectual property, and will increase the standing of Australia in this rapidly developing field, including via links being built to leading international workers. The National Research Priority Goals of Frontier Technologies, Breakthrough Science, Smart Information Use, and Promoting an Innovation Economy will thus be advanced.Read moreRead less
Australian Laureate Fellowships - Grant ID: FL140100025
Funder
Australian Research Council
Funding Amount
$2,617,462.00
Summary
The physical brain: emergent, multiscale, nonlinear, and critical dynamics. The physical brain: emergent, multiscale, nonlinear, and critical dynamics. This project aims to transform the understanding of the structure and function of the brain as a complex physical system. It aims to reveal and unify new aspects of information processing, transitions in conscious state, and nonlinear brain interactions by translating and applying concepts and methods from physics and mathematics. It will treat b ....The physical brain: emergent, multiscale, nonlinear, and critical dynamics. The physical brain: emergent, multiscale, nonlinear, and critical dynamics. This project aims to transform the understanding of the structure and function of the brain as a complex physical system. It aims to reveal and unify new aspects of information processing, transitions in conscious state, and nonlinear brain interactions by translating and applying concepts and methods from physics and mathematics. It will treat brain structure and dynamics together to address emergent phenomena like waves and patterns on multiple scales, treating waves as equal participants alongside neurons. Innovative predictions of brain phenomena will aim to be verified against data and used to understand brain networks, dynamics, and the physical phenomena underlying information processing and consciousness.Read moreRead less
Neural spike variability: unifying conflicting views of neural dynamics. The project aims to improve our understanding of neural dynamics. The brain represents and processes information by means of neural voltage spikes, which show great variability in their timing. Understanding the origin of such variable neural dynamics is a long-standing problem in neuroscience. The aim of this project is to develop a novel account of variable neural dynamics, unravelling their computational principles in th ....Neural spike variability: unifying conflicting views of neural dynamics. The project aims to improve our understanding of neural dynamics. The brain represents and processes information by means of neural voltage spikes, which show great variability in their timing. Understanding the origin of such variable neural dynamics is a long-standing problem in neuroscience. The aim of this project is to develop a novel account of variable neural dynamics, unravelling their computational principles in the brain, and unifying current leading but conflicting theories. The model developed in this project would be used to explain a range of empirical observations, and the principles unravelled would be applied to understand spike-timing based neural coding. The new knowledge gained in this project may have profound implications for designing brain-like computing devices.Read moreRead less
Decision-making in social insects and nature-inspired optimisation algorithms. Insect societies are ideal for the study of complex systems. Contrary to other complex systems, insect colonies can be modified without destroying the system. Computer scientists have found a source of inspiration in the behaviour of social insects for solving optimisation problems. Here we will study the influence of information flow on decision-making in real insect societies using:
1) Experiments aimed at investig ....Decision-making in social insects and nature-inspired optimisation algorithms. Insect societies are ideal for the study of complex systems. Contrary to other complex systems, insect colonies can be modified without destroying the system. Computer scientists have found a source of inspiration in the behaviour of social insects for solving optimisation problems. Here we will study the influence of information flow on decision-making in real insect societies using:
1) Experiments aimed at investigating how storage and transfer of information affects individual decision-making within a honey bee colony (University of Sydney)
2) Design of a new class of 'bee' algorithms that incorporate direct information transfer and are aimed at solving dynamic multicriterion optimisation problems (University of Leipzig).
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Retracing the Early Evolution of Metazoa using Novel Methods and Strategies. Metazoa is one of the best-characterised groups of species in terms of its morphology, fossil record, development, and genetic make-up, but the phylogeny remains obscure because the fossil record is incomplete and because molecular phylogenetic methods have not yet been developed with the complexity of genomic data in mind. We will develop methods and strategies for the analysis of whole genomes, and use them in studies ....Retracing the Early Evolution of Metazoa using Novel Methods and Strategies. Metazoa is one of the best-characterised groups of species in terms of its morphology, fossil record, development, and genetic make-up, but the phylogeny remains obscure because the fossil record is incomplete and because molecular phylogenetic methods have not yet been developed with the complexity of genomic data in mind. We will develop methods and strategies for the analysis of whole genomes, and use them in studies of the mitochondrial genome. We will infer the animal phylogeny, and use it to chart the evolution of animal morphology and development, and the evolution of mitochondrial genetic codes, gene order, and nucleotide content.Read moreRead less
Mathematical models and bioinformatic analyses of bacterial genome evolution. Bacteria are vital agents in earth's biosphere, breaking down and synthesising a wide variety of compounds. Some bacteria cause disease; others are exploited for a range of biotechnological applications. Bacteria have a remarkable ability to survive and thrive in changing conditions. For example, pathogenic bacteria confronted by antibiotics easily evolve resistance to them. With the reality of climate change, we expec ....Mathematical models and bioinformatic analyses of bacterial genome evolution. Bacteria are vital agents in earth's biosphere, breaking down and synthesising a wide variety of compounds. Some bacteria cause disease; others are exploited for a range of biotechnological applications. Bacteria have a remarkable ability to survive and thrive in changing conditions. For example, pathogenic bacteria confronted by antibiotics easily evolve resistance to them. With the reality of climate change, we expect more rapid shifts in the structure of bacterial communities, possibly leading to the emergence of new pathogens. The benefits of this project are to discover how the genetic structure of bacteria confer this flexibility, and to help keep Australia at the forefront of research in bioinformatics and mathematical biology.
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Social insect behaviour: the importance of individual-decision making and information transfer. Insect societies are complex systems. Understanding complex systems is often hampered by our inability to study the individual units that comprise the system without also disturbing the system. Insect societies are unique in that the individual insects can be studied within their natural setting. This project will study foraging behaviour of honey bees with respect to individual decision-making and in ....Social insect behaviour: the importance of individual-decision making and information transfer. Insect societies are complex systems. Understanding complex systems is often hampered by our inability to study the individual units that comprise the system without also disturbing the system. Insect societies are unique in that the individual insects can be studied within their natural setting. This project will study foraging behaviour of honey bees with respect to individual decision-making and information transfer. In doing so we will obtain insights in the working of other, less accessible, complex systems such as the mammalian brain or the Australian economy.Read moreRead less
Sinusoidal voltage protocols for characterisation of ion channel kinetics. This project aims to implement an innovative approach to modelling ion channel behaviour that employs short, information-rich datasets and parameter inference. Using the hERG potassium channel as a test case, the project will show that this approach is more efficient than current methods and outperforms all published models in independent validations. The project aims to extend on initial implementation to probe the therm ....Sinusoidal voltage protocols for characterisation of ion channel kinetics. This project aims to implement an innovative approach to modelling ion channel behaviour that employs short, information-rich datasets and parameter inference. Using the hERG potassium channel as a test case, the project will show that this approach is more efficient than current methods and outperforms all published models in independent validations. The project aims to extend on initial implementation to probe the thermodynamics and pharmacology of ion channel gating. The anticipated outcomes are to grow fundamental knowledge of ion channel biophysics and ability to probe ion channel function in silico. The project will build on an emerging collaboration between international leaders in physiology, pharmacology, mathematics and computer modelling. The methodology and fundamental knowledge generated will significantly advance our understanding of the physiology and biophysics of ion channels, while the application of the method will have direct impact in the pharmaceutical industry and regulatory science.Read moreRead less
Nonlinear Dynamics of Pulse Coupled Oscillators. A mathematical model of the heart pacemaker system will be created, based on simple interacting units. These units have been shown to be good models of physiological information e.g. the discrimination of different influences on heart rate. We will firstly look at the interaction of the units in simple combinations and then tune the model to mimic the behaviour of the cardiac pacemaker.
Potential benefits may arise from elucidating the mechanis ....Nonlinear Dynamics of Pulse Coupled Oscillators. A mathematical model of the heart pacemaker system will be created, based on simple interacting units. These units have been shown to be good models of physiological information e.g. the discrimination of different influences on heart rate. We will firstly look at the interaction of the units in simple combinations and then tune the model to mimic the behaviour of the cardiac pacemaker.
Potential benefits may arise from elucidating the mechanisms underlying arrhythmias which contribute to ?sudden cardiac death? in young men, and suggesting strategies for artificial pacemakers to effectively arrest abnormal rhythms before they convert to potentially fatal fibrillation.Read moreRead less