Alternative Splicing in the Mouse Transcriptome. Although the human genome completion is cause for excitement we do not have any firm indication of precisely how many protein-coding genes exist in a mammalian genome. We have even less indication of the extent to which these genes generate alternative gene products, through a process termed alternative splicing. The detection and sequencing of these full-length alternative gene products is the focus of this application. This application details t ....Alternative Splicing in the Mouse Transcriptome. Although the human genome completion is cause for excitement we do not have any firm indication of precisely how many protein-coding genes exist in a mammalian genome. We have even less indication of the extent to which these genes generate alternative gene products, through a process termed alternative splicing. The detection and sequencing of these full-length alternative gene products is the focus of this application. This application details the opportunity to participate in the identification of the full transcriptome of the mouse and is part of a collaborative effort with The RIKEN Genome Sciences Center in Japan.Read moreRead less
Discovery Early Career Researcher Award - Grant ID: DE210101344
Funder
Australian Research Council
Funding Amount
$364,981.00
Summary
Advancing genomic-driven infectious diseases modelling. Emerging infectious diseases and antimicrobial resistance are among the greatest threats to Australian health and agriculture, and current surveillance tools may fail to detect and mitigate infectious disease outbreaks in real time. This project will develop advanced phylodynamic methods (i.e., mathematical models of infectious disease transmission and pathogen evolution) to enable real-time surveillance of infectious disease outbreaks as t ....Advancing genomic-driven infectious diseases modelling. Emerging infectious diseases and antimicrobial resistance are among the greatest threats to Australian health and agriculture, and current surveillance tools may fail to detect and mitigate infectious disease outbreaks in real time. This project will develop advanced phylodynamic methods (i.e., mathematical models of infectious disease transmission and pathogen evolution) to enable real-time surveillance of infectious disease outbreaks as they emerge and monitor levels of drug resistance.Read moreRead less
Motor Unit Numbers Estimation (MUNE) using Bayesian statistical methodology for monitoring of progression of neuromuscular diseases. A means of objectively measuring the pathology of a neuromuscular disease involving motor unit loss, such as motor neuron disease, is much needed. This will be achieved by using newly developed electrophysiological techniques and developing new Bayesian statistical methodology to determine the number of motor units that supply a muscle. Our innovations will reliabl ....Motor Unit Numbers Estimation (MUNE) using Bayesian statistical methodology for monitoring of progression of neuromuscular diseases. A means of objectively measuring the pathology of a neuromuscular disease involving motor unit loss, such as motor neuron disease, is much needed. This will be achieved by using newly developed electrophysiological techniques and developing new Bayesian statistical methodology to determine the number of motor units that supply a muscle. Our innovations will reliably determine the number of motor units that supply a muscle in both normal subjects and in diseased patients with loss of motor nerves. This will enable the monitoring of disease progression. An outcome will be a software package that can be used with standard electrophysiology machines.Read moreRead less
Classification of Microarray Gene-Expression Data. The broad aim is to provide statistical methodology for the classification of microarray gene-expression data. Microarrays are part of a new biotechnology that allows the monitoring of expression levels for thousands of genes simultaneously. The explosion in microarrays has produced massive quantities of data that require new statistical techniques for analysis in order to exploit their enormous scientific potential. One of the main uses of ....Classification of Microarray Gene-Expression Data. The broad aim is to provide statistical methodology for the classification of microarray gene-expression data. Microarrays are part of a new biotechnology that allows the monitoring of expression levels for thousands of genes simultaneously. The explosion in microarrays has produced massive quantities of data that require new statistical techniques for analysis in order to exploit their enormous scientific potential. One of the main uses of the methodology to be developed is to expedite the discovery of new subclasses of diseases. Another is to provide prediction rules for the diagnosis and treatment of diseases.Read moreRead less
Cross-Entropy Methods in Complex Biological Systems. The Cross-Entropy method provides a powerful new way to find superior solutions to complicated optimisation problems in biology, ranging from better design and implementation of medical treatments to an increased understanding of complex ecosystems.
Applications of Bayesian methods in Genomics and Comparative Genomics. Bayesian statistics provides a unified and versatile approach to problems of data analysis, inference and hypothesis testing. This project will involve the application of Bayesian methods to four topics of commercial and scientific importance in the fields of Genomics and Comparative Genomics. The four topics are: data analysis for a novel DNA sequencing technology, investigating genomic structure using multiple change-point ....Applications of Bayesian methods in Genomics and Comparative Genomics. Bayesian statistics provides a unified and versatile approach to problems of data analysis, inference and hypothesis testing. This project will involve the application of Bayesian methods to four topics of commercial and scientific importance in the fields of Genomics and Comparative Genomics. The four topics are: data analysis for a novel DNA sequencing technology, investigating genomic structure using multiple change-point analysis, phlogenetic inference with multiple genes and detection of incongruent phylogenies. The overall goal of the project is to advance understanding of the structure, function and evolution of genomes.Read moreRead less
Multi-scale modelling of cell migration in developmental biology. Interpretative and predictive tools are needed for the comprehensive understanding of directed cell migration in the medical sciences. Mathematical models and modelling methodologies developed in this project will make a significant contribution to the investigation of cell migration and the testing and generation of hypotheses. Such models are needed to understand observed cellular patterns. This project will contribute to knowle ....Multi-scale modelling of cell migration in developmental biology. Interpretative and predictive tools are needed for the comprehensive understanding of directed cell migration in the medical sciences. Mathematical models and modelling methodologies developed in this project will make a significant contribution to the investigation of cell migration and the testing and generation of hypotheses. Such models are needed to understand observed cellular patterns. This project will contribute to knowledge of normal and abnormal developmental processes, especially in embryonic growth. Understanding these processes should lead to prediction and treatment of congenital disorders and contribute to a healthy start to life.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
Spatio-temporal modelling of Ras dependent MAP kinase activation. This project is at the heart of the national research priority 'Frontier Technologies for Building and Transforming Australian Industries'. Using cutting edge methods and techniques of systems biology, coupled with innovative experimental molecular cell biology we will construct and simulate mathematical models of the EGF-regulated MAP kinase pathway. The project will yield new insights into the fundamental mechanisms of cell sign ....Spatio-temporal modelling of Ras dependent MAP kinase activation. This project is at the heart of the national research priority 'Frontier Technologies for Building and Transforming Australian Industries'. Using cutting edge methods and techniques of systems biology, coupled with innovative experimental molecular cell biology we will construct and simulate mathematical models of the EGF-regulated MAP kinase pathway. The project will yield new insights into the fundamental mechanisms of cell signal transduction that drive cell division, differentiation and transformation and may enable the design of new anticancer therapies. Importantly, the modelling and simulation methods developed in the project will have a general applicability to other complex systems such as sustainable ecological systems.Read moreRead less
Scalable biocomputing on networks: design and mathematical foundations. This project aims to develop technology with the potential to disrupt computation by providing a way to solve combinatorial mathematical problems in an efficient manner. Electronic computers have revolutionised our lives over the last half-century, but there are tasks they can not do, usually those requiring multi-tasking, much as our brains do. This project aims to overcome some of these problems by physically using molecul ....Scalable biocomputing on networks: design and mathematical foundations. This project aims to develop technology with the potential to disrupt computation by providing a way to solve combinatorial mathematical problems in an efficient manner. Electronic computers have revolutionised our lives over the last half-century, but there are tasks they can not do, usually those requiring multi-tasking, much as our brains do. This project aims to overcome some of these problems by physically using molecular parts of living things moving within specially mathematically designed networks to solve, in parallel, "combinatorial" mathematical problems that vex traditional computers, while using far less energy than electronic devices. This project expects to develop this nascent field into a practically useful, disruptive technology based in Australia.Read moreRead less