Publications by authors named "W P RITCHIE"
Accurate quantification and detection of intron retention levels require specialized software. Building on our previous software, we create a suite of tools called IRFinder-S, to analyze and explore intron retention events in multiple samples. Specifically, IRFinder-S allows a better identification of true intron retention events using a convolutional neural network, allows the sharing of intron retention results between labs, integrates a dynamic database to explore and contrast available samples, and provides a tested method to detect differential levels of intron retention.
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- Diffuse grade II IDH-mutant gliomas are slow-growing brain tumors that can progress into more aggressive forms and exhibit diversity among their cell types, but distinguishing these subtypes remains challenging due to a lack of reliable markers.
- The study identifies two distinct cell populations in these gliomas using the SOX9 (astrocyte-like) and OLIG1 (oligodendrocyte-like) transcription factors, with each population displaying unique molecular markers and active signaling pathways impacting their behavior.
- NOTCH1 activation was found to reduce oligodendrocytic markers and overall cell proliferation, while BMP treatment altered gene expression patterns, leading to a better understanding of the roles these distinct
Background: Breast cancer is amongst the 10 first causes of death in women worldwide. Around 20% of patients are misdiagnosed leading to early metastasis, resistance to treatment and relapse. Many clinical and gene expression profiles have been successfully used to classify breast tumours into 5 major types with different prognosis and sensitivity to specific treatments.
View Article and Find Full Text PDFBackground: Faecal contamination from dairy farm effluent is a major risk to water quality in New Zealand. In this experiment we have tested the efficacy of Kombucha SCOBY (symbiotic culture of bacteria and yeast), to reduce the concentration of Escherichia coli in dairy shed effluent (DSE).
Results: Kombucha SCOBY was highly effective in lowering the number of E.
Intron retention (IR) occurs when a complete and unspliced intron remains in mature mRNA. An increasing body of literature has demonstrated a major role for IR in numerous biological functions, including several that impact human health and disease. Although experimental technologies used to study other forms of mRNA splicing can also be used to investigate IR, a specialized downstream computational analysis is optimal for IR discovery and analysis.
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