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Sydney Precision Data Science Centre

Sydney Precision Data Science Centre

Sydney Precision Data Science Centre

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Adjusting for genetic confounders in transcriptome-wide association studies improves discovery of risk genes of complex traits

Dr Siming Zhao, Assistant Professor of Biomedical Data Science, Dartmouth Giesel School of Medicine This is an online event held via Zoom: https://uni-sydney.zoom.us/j/85114748391 Many methods have been developed to leverage expression quantitative trait loci (eQTL) data to nominate candidate genes from genome-wide association studies. These methods, including colocalization, transcriptome-wide association studies (TWAS) and Mendelian randomization-based methods; […]

Data Analysis for Precision Health Micro-credential

This course provides essential statistical skills to analyse and interpret vast health and medical data, transforming it into actionable insights. As we enter the data revolution, the scale and accessibility of health and medical data has reached unprecedented levels creating a growing need for expertise in extracting insights from this data. This course will provide […]

$660

BANKSY unifies cell typing and tissue domain segmentation for scalable spatial omics data analysis

Statistical Bioinformatics SeminarDr Vipul Singhal, Head of Computational Biology, Integrated Biosciences, Inc A core property of solid tissue is the spatial arrangement of cell types into stereotypical spatial patterns. These cells can be investigated with spatial omics technologies to reveal both their omics features (transcriptomes, proteomes, etc), and their spatial coordinates. Because a cell’s state […]

Vitessce framework for interactive visualization of single-cell data and its applications

Mark Keller, PhD student in the Bioinformatics and Integrative Genomics program at Harvard Medical School This is an online event held via Zoom: https://uni-sydney.zoom.us/j/85114748391 We introduce Vitessce to address the need for a scalable, interactive, and extensible framework that supports visualization of spatial and multimodal single-cell data. Its modular architecture, compatibility with multiple file formats, and support […]

Spatially resolved mapping of cells associated with human complex traits

Liyang Song, PhD student, Westlake University This is an online event held via Zoom: https://uni-sydney.zoom.us/j/85114748391 Depicting spatial distributions of disease-relevant cells is crucial for understanding disease pathology. In our recent work, we developed a method, gsMap, that integrates spatial transcriptomics (ST) data with genome-wide association study (GWAS) summary statistics to map cells to human complex traits, including […]

RNA polymerase II at histone genes predicts outcome in human cancer

Dr Ye Zheng, University of Texas MD Anderson Cancer Center This is an online event held via Zoom: https://uni-sydney.zoom.us/j/85114748391 Genome-wide hypertranscription is common in human cancer and predicts poor prognosis. To understand how hypertranscription might drive cancer, we applied our formalin-fixed paraffin-embedded (FFPE)–cleavage under targeted accessible chromatin method for mapping RNA polymerase II (RNAPII) genome-wide in FFPE […]

Revisiting quality control, normalisation, and spatially variable gene calling in CosMx WTx

Dr Dharmesh D Bhuva, NHMRC Emerging Leadership Fellow (EL1), Frazer Institute, The University of Queensland This is an online event held via Zoom: https://uni-sydney.zoom.us/j/85114748391 Spatially resolved molecular measurements have revolutionised the study of disease systems, providing an unprecedented resolution and throughput of molecular measurements. The opportunity posed by such data requires a new set of tools […]