A5085797502- RNA Research and Splicing
- RNA modifications and cancer
- MicroRNA in disease regulation
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Animal testing and alternatives
- RNA Interference and Gene Delivery
- Circular RNAs in diseases
- Chromosomal and Genetic Variations
- Gene expression and cancer classification
- Genomic variations and chromosomal abnormalities
- Anesthesia and Neurotoxicity Research
- Neuroendocrine regulation and behavior
- Neurological Disease Mechanisms and Treatments
- Genomics and Phylogenetic Studies
- Veterinary Pharmacology and Anesthesia
National Centre for the Replacement Refinement and Reduction of Animals in Research
2017-2022
EMBL Australia
2016-2019
Australian National University
2016-2019
The University of Queensland
2009-2017
Commonwealth Scientific and Industrial Research Organisation
2012
Park Centre for Mental Health
2012
Queensland Centre for Mental Health Research
2012
RNA binding proteins (RBPs) control the fate and expression of a transcriptome. Despite this fundamental importance, our understanding plant RBPs is rudimentary, being mainly derived via bioinformatic extrapolation from other kingdoms. Here, we adapted mRNA-protein interactome capture method to investigate proteome in planta. From Arabidopsis thaliana etiolated seedlings, captured more than 700 proteins, including 300 with high confidence that have defined as At-RBP set. Approximately 75%...
Abstract Circular RNAs (circRNAs) exhibit unique properties due to their covalently closed nature. Models of circRNAs synthesis and function are emerging but much remains undefined about this surprisingly prevalent class RNA. Here, we identified exonic from human mouse RNA-sequencing datasets, documenting multiple new examples. Addressing function, found that many co-sediment with ribosomes, indicative translation potential. By contrast, potential act as microRNA sponges were scarce, some...
MicroRNAs (miRNAs) suppress gene expression by forming a duplex with target messenger RNA (mRNA), blocking translation or initiating cleavage. Computational approaches have proven valuable for predicting which mRNAs can be targeted given miRNA, but currently available prediction methods do not address the extent of formation under physiological conditions. Some miRNAs at low concentrations bind to mRNAs, whereas others are unlikely within physiologically relevant concentration range. Here we...
Transcriptional regulation by microRNAs (miRNAs) involves complementary base-pairing at target sites on mRNAs, yielding complex secondary structures. Here we introduce an efficient computational approach and software (FASTH) for genome-scale prediction of miRNA based minimizing the free energy duplex structure. We apply our to identify in human mouse transcriptomes. Our results show that short sequence motifs 5′ end miRNAs frequently match mRNAs perfectly, not only validated but additionally...
Target-specific hybridization depends on oligo-probe characteristics that improve specificity and minimize genome-wide cross-hybridization. Interplay between specific cross-hybridization has been insufficiently studied, despite its crucial role in efficient probe design data analysis.In this study, we defined as a ratio oligo target-specific A microarray database, derived from the Genomic Comparison Hybridization (GCH) experiment performed using Affymetrix platform, contains two different...
Recent advances in RNA sequencing technology (RNA-Seq) enables comprehensive profiling of RNAs by producing millions short sequence reads from size-fractionated libraries. Although conventional tools for detecting and distinguishing non-coding (ncRNAs) reference-genome data can be applied to data, ncRNA detection improved harnessing the full information content provided this new technology. Here we present NorahDesk, first unbiased universally applicable method small ncRNAs RNA-Seq data....
Transcriptional regulation by microRNAs (miRNAs) involves complementary base-pairing at target sites on mRNAs, yielding complex secondary structures.Here we introduce an efficient computational approach and software (FASTH) for genomescale prediction of miRNA based minimizing the free energy duplex structure.We apply our to identify in human mouse transcriptomes.Our results show that short sequence motifs 59 end miRNAs frequently match mRNAs perfectly, not only validated but additionally...