Keywords: single-cell

Venue: The Open University, Walton Hall

City: Milton Keynes

Country: United Kingdom

Postcode: MK7 6AA

Learning objectives:

• Be ready to apply the Seurat pipeline to new datasets
• Construct and run a cell type annotation for the clusters
• Construct and run a dimensionality reduction using Principal Component Analysis
• Describe an AnnData object to store single-cell data
• Evaluate quality of single-cell data and apply steps to select and filter cells and genes based on QC
• Evaluate the quality of single cell data and filter out low quality cells
• Execute data normalization and scaling
• Explain the preprocessing steps for single-cell data
• Explain the steps involved in clustering single cell data
• Identify highly variable genes
• Identify marker genes for the clusters
• Perform a graph-based clustering for cells
• Perform clustering with Seurat
• Perform differential expression analysis using edgeR
• Prepare single cell data for analysis with Seurat
• Understand and generate the pseudobulk expression matrix with Decoupler
• Understand the principles of pseudobulk analysis in single-cell data

Organizer: Marisa Loach (https://orcid.org/0000-0001-6979-6930)

Event types:

• Workshops and courses

Sponsors: BioFAIR

Instructors: Kevin Rue-Albrecht, Pavankumar Videm