A5049900685- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- RNA Research and Splicing
- Genomics and Rare Diseases
- RNA and protein synthesis mechanisms
- Circular RNAs in diseases
- Genomics and Phylogenetic Studies
- Esophageal Cancer Research and Treatment
- RNA regulation and disease
- MicroRNA in disease regulation
- Cancer-related gene regulation
- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Cancer Genomics and Diagnostics
- Molecular Biology Techniques and Applications
- Genomic variations and chromosomal abnormalities
- Neuroblastoma Research and Treatments
- Genetics and Neurodevelopmental Disorders
- Gastric Cancer Management and Outcomes
- DNA and Nucleic Acid Chemistry
- BRCA gene mutations in cancer
- Cancer, Lipids, and Metabolism
- Cancer, Hypoxia, and Metabolism
- Mitochondrial Function and Pathology
- Metabolism and Genetic Disorders
The University of Sydney
2021-2025
Garvan Institute of Medical Research
2015-2024
UNSW Sydney
2015-2024
St Vincent's Clinic
2014-2024
New South Wales Department of Health
2023
Macquarie University
2022
Impact
2022
Northern Sydney Local Health District
2022
The University of Melbourne
2010-2022
Children's Cancer Institute Australia
2014-2022
A major proportion of the mammalian transcriptome comprises long RNAs that have little or no protein-coding capacity (ncRNAs). Only a handful such transcripts been examined in detail, and it is unknown whether this class transcript generally functional merely artifact. Using situ hybridization data from Allen Brain Atlas, we identified 849 ncRNAs (of 1,328 examined) are expressed adult mouse brain found majority were associated with specific neuroanatomical regions, cell types, subcellular...
The transcriptional networks that regulate embryonic stem (ES) cell pluripotency and lineage specification are the subject of considerable attention. To date such studies have focused almost exclusively on protein-coding transcripts. However, recent transcriptome analyses show mammalian genome contains thousands long noncoding RNAs (ncRNAs), many which appear to be expressed in a developmentally regulated manner. functions these remain untested. identify ncRNAs involved ES biology, we used...
Studies of the transcriptional output human and mouse genomes have revealed that there are many more transcripts produced than can be accounted for by predicted protein-coding genes. Using a custom microarray, we identified 184 non-coding RNAs exhibit twofold up- or down-regulation upon differentiation C2C12 myoblasts into myotubes. Here, focus on Men ε/β locus, which is up-regulated 3.3-fold during differentiation. Two RNA isoforms from single polymerase II promoter, differing in location...
The past few years have revealed that the genomes of all studied eukaryotes are almost entirely transcribed, generating an enormous number non-protein-coding RNAs (ncRNAs). In parallel, it is increasingly evident many these regulatory functions. Here, we highlight recent advances illustrate diversity ncRNA control genome dynamics, cell biology, and developmental programming.
Large numbers of long RNAs with little or no protein-coding potential [long noncoding (lncRNAs)] are being identified in eukaryotes. In parallel, increasing data describing the expression profiles, molecular features and functions individual lncRNAs a variety systems accumulating. To enable systematic compilation updating this information, we have developed database (lncRNAdb) containing comprehensive list that been shown to have, be associated with, biological eukaryotes, as well messenger...
Despite the prevalence of long noncoding RNA (lncRNA) genes in eukaryotic genomes, only a small proportion have been examined for biological function. lncRNAdb, available at http://lncrnadb.org, provides users with comprehensive, manually curated reference database 287 lncRNAs that described independently scientific literature. In addition to capturing great recent literature describing functions individual lncRNAs, lncRNAdb now offers an improved user interface enabling greater...
Transcriptomic analyses have identified tens of thousands intergenic, intronic, and cis -antisense long noncoding RNAs (lncRNAs) that are expressed from mammalian genomes. Despite progress in functional characterization, little is known about the post-transcriptional regulation lncRNAs their half-lives. Although many easily detectable by a variety techniques, it has been assumed generally unstable, but this not examined genome-wide. Utilizing custom RNA array, we determined half-lives ∼800...
The identification of cancer-associated long noncoding RNAs (lncRNAs) and the investigation their molecular biological functions are important to understand biology cancer its progression. Although lncRNAs mechanisms regulating expression largely unknown, recent studies beginning unravel importance in human health disease. Here, we report that a number differentially expressed melanoma cell lines comparison melanocytes keratinocyte controls. One these lncRNAs, SPRY4-IT1 (GenBank accession ID...
Current estimates indicate that only about 1.2% of the mammalian genome codes for amino acids in proteins. However, mounting evidence over past decade has suggested vast majority is transcribed, well beyond boundaries known genes, a phenomenon as pervasive transcription [1]. Challenging this view, an article published PLoS Biology by van Bakel et al. concluded “the not pervasively transcribed previously reported” [2] and detected low-level due to technical artefacts and/or background...
Abstract Background Long non-protein-coding RNAs (ncRNAs) are emerging as important regulators of cellular differentiation and widely expressed in the brain. Results Here we show that many long ncRNAs exhibit dynamic expression patterns during neuronal oligodendrocyte (OL) lineage specification, neuronal-glial fate transitions, progressive stages OL elaboration including myelination. Consideration genomic context these dynamically regulated showed they were part complex transcriptional loci...
Long noncoding RNAs (lncRNAs) are increasingly recognized to play major regulatory roles in development and disease. To identify novel regulators breast biology, we identified differentially regulated lncRNAs during mouse mammary development. Among the highest most expressed was a transcript ( Zfas1 ) antisense 5′ end of protein-coding gene Znfx1 . In vivo, RNA is localized within ducts alveoli gland. intronically hosts three previously undescribed C/D box snoRNAs (SNORDs): Snord12 ,...
RNA-sequencing has become the gold standard for whole-transcriptome gene expression quantification. Multiple algorithms have been developed to derive counts from sequencing reads. While a number of benchmarking studies conducted, question remains how individual methods perform at accurately quantifying levels We performed an independent study using data well established MAQCA and MAQCB reference samples. reads were processed five workflows (Tophat-HTSeq, Tophat-Cufflinks, STAR-HTSeq,...
RNAcentral is a comprehensive database of non-coding RNA (ncRNA) sequences, collating information on ncRNA sequences all types from broad range organisms. We have recently added new genome mapping pipeline that identifies genomic locations for in 296 species. also several functional annotations, such as tRNA secondary structures, Gene Ontology and miRNA-target interactions. A quality control mechanism based Rfam family assignments potential contamination, incomplete more. The has become...