QUT offers a diverse range of student topics for Honours, Masters and PhD study. Search to find a topic that interests you or propose your own research topic to a prospective QUT supervisor. You may also ask a prospective supervisor to help you identify or refine a research topic.
Found 19 matching student topics
Displaying 1–12 of 19 results
Scalable software solutions for improving the CRISPR gene editing system
The CRISPR-Cas9 technology allows the modification of virtually any gene in any organism of interest. It has generated a lot of interest, both in the research community and the general population.One of the crucial components of CRISPR experiments is the design of the 'guide RNAs' that will control where modifications occur. We have developed a software pipeline, named Crackling, to identify safe and effective guide RNAs across entire genomes.We are seeking to expand and improve various aspects of our current …
- Study level
- Honours, Vacation research experience scheme
- Faculty
- Faculty of Science
- School
- School of Computer Science
- Research centre(s)
- Centre for Data Science
Genome to phenome: exploiting multi-omics and deep learning strategies to decipher importance of isoforms in health and behaviour
The molecular process that leads to multiple mRNA transcripts being produced from the same segment of DNA (aka gene) is known as alternative splicing (AS). This is a common form of regulation in higher eukaryotes, enabling the production of novel protein isoforms, which in turn are known to have a big impact on phenotype. Understanding the regulatory factors involved in AS, including epigenetic mechanisms such as DNA methylation, will offer key insights into important biological phenomena (health disease, behaviour, production). …
- Study level
- PhD
- Faculty
- Faculty of Science
- School
- School of Biology and Environmental Science
Uncovering the dark transcriptome and proteome with long-read sequencing
Parts of the transcriptome and proteome are invisible to current technologies. We refer to them as the dark transcriptome and proteome and they encompass uncharacterised mRNA and protein isoforms. Importantly, this hidden molecular phenotype is believed to play a critical role in animal health and behavior.Recent developments in mRNA analytical methods such as long-read sequencing (PacBio, ONT) have enabled better characterization of isoforms and are redefining the transcriptome landscape in many species. We and others have found that data generated …
- Study level
- Honours, Vacation research experience scheme
- Faculty
- Faculty of Science
- School
- School of Biology and Environmental Science
Visualisation of CRISPR targets
CRISPR-Cas9 technology allows us to modify virtually any gene in any organism of interest. It has generated a lot of interest, both in the research community and the general population.One of the crucial components of CRISPR experiments is the design of the 'guide RNAs' that will control where modifications occur.We have developed a software pipeline, named Crackling, to identify safe and effective guide RNAs across entire genomes. We're now seeking to develop a visualisation to communicate the results produced by …
- Study level
- Honours, Vacation research experience scheme
- Faculty
- Faculty of Science
- School
- School of Computer Science
- Research centre(s)
- Centre for Data Science
High-performance bioinformatic analysis of gene editing targets using Python Standard Libraries
The CRISPR-Cas9 technology allows the modification of virtually any gene in any organism of interest. It has generated a lot of interest, both in the research community and the general population.One of the crucial components of CRISPR experiments is the design of the 'guide RNAs' that will control where modifications occur. It is vital that the modification is made efficiently and at the desired location. This calls for bioinformatic approaches to design these guide RNAs.Our existing Python-based bioinformatic pipeline is …
- Study level
- Vacation research experience scheme
- Faculty
- Faculty of Science
- School
- School of Computer Science
- Research centre(s)
- Centre for Data Science
Prostate cancer transcriptomics (Honours and Master of Philosophy)
At the Australian Prostate Cancer Research Centre QLD, we are interested in the cellular adaptive response processes leading to therapy resistance in advanced prostate cancer.A focus area of our research is studying the transcriptome changes in prostate cancer cell lines, xenograft models and patient samples using RNA sequencing technologies.By integrating our large in-house repository of RNAseq data sets with publicly available studies, this project will further explore the cellular heterogeneity of prostate tumours and the plasticity of cancer cells in …
- Study level
- Master of Philosophy, Honours
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
Estimating the evolutionary history of plasmids and viruses
In the case of cellular life - bacteria, archaea and eukaryotes - determining the 'tree of life' is a comparatively well-studied problem.This vertical evolutionary history can be estimated using concatenated gene phylogenies, where single copy marker genes are concatenated into a single multiple sequence alignment which is then used in a phylogenetic tree reconstruction algorithm.Viral genomes and plasmid sequences, meanwhile, are more challenging to fit into a phylogenetic framework.
- Study level
- PhD, Master of Philosophy, Honours
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
- Research centre(s)
-
Centre for Microbiome Research
Adaptive evolution of anaerobic methanotrophic (ANME) archaea mediating methane oxidation in freshwater environments (PhD)
The as-yet-uncultured archaeal lineage Methanoperedenaceae are anaerobic methanotrophs with a key role in mitigating the atmospheric release of methane in freshwater environments. The metabolic diversity of these microorganisms directly links methane with several key biochemical cycles and suggests a remarkable ability of these microorganisms to adapt to diverse environmental conditions.The overall aim of this PhD project will be to uncover the metabolic diversity of the Methanoperedenaceae and to understand the evolutionary mechanisms responsible for these adaptations.Methods and ResourcesThe project will …
- Study level
- PhD
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
- Research centre(s)
-
Centre for Microbiome Research
Illuminating the microbial world using genome-based fluorescence microscopy
Our understanding of microbial diversity on earth has been fundamentally changed by metagenomic characterisation of natural ecosystems. Traditional approaches for visualising microbial communities are time-consuming and provide limited information about the identity of specific microorganisms.The proposed research aims to combine single cell genomics and super resolution microscopy for novel, high-throughput, genome-based techniques to visualise microorganisms, plasmids and viruses, with strain level specificity.The application of these highly scalable approaches will provide comprehensive and unprecedented insight into the fine-scale dynamics and evolution …
- Study level
- PhD
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
- Research centre(s)
-
Centre for Microbiome Research
Computational drug repurposing for neuropsychiatric disease
While hundreds of robust genetic associations have been found for neuropsychiatric disease (such as schizophrenia, major depression, and anxiety) understanding the exact molecular mechanisms leading to disease onset and progression remains challenging. Inherited (i.e. genetic) risk factors for many neuropsychiatric diseases converge on genes that are co-ordinately expressed (co-expressed) in a disease-relevant tissue (e.g. brain). The study of how genetic risk factors affect co-expressed genes (i.e. gene co-expression analysis) has the potential to uncover new biological processes underlying disease onset. …
- Study level
- Honours
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
Giant viruses in the human gut microbiome
The human body is home to a vast ecosystem of microorganisms including bacteria, archaea, fungi, viruses, and bacteriophages that make up the human microbiota. These microbes and their collective genetic material, known as the microbiome, influence a wide range of physiological functions including nutrient production and absorption, the development and regulation of our immune system, protection against potential pathogens, and even our mood and mental health. While distinct microbial communities exist throughout the body, the gut microbiome has gained particular …
- Study level
- Master of Philosophy, Honours
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
- Research centre(s)
-
Centre for Microbiome Research
Identifying protein and metabolite markers of burn injury and trauma
It can be difficult for clinical teams to determine the severity of burn injuries when the patient first presents to the hospital. This is because burn wounds continue to deepen/progress over time, in a process known as burn wound conversion. Some wounds may deepen over days or weeks and require aggressive surgical treatment e.g. grafting, and some wounds don’t progress, stay superficial in depth, and they can be managed conservatively with the application of different bandages or dressings. We have …
- Study level
- PhD, Master of Philosophy, Honours
- Faculty
- Faculty of Health
- School
- School of Biomedical Sciences
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