Weinstein Cardiac Single Cell Workshop
This workshop will be divided in two parts: lectures first followed by a practical session where people would work on their laptops.
The topics that would be covered are an overview of the technologies, sample preparation challenges, focus on 10x scRNA-seq data, raw data processing, clustering (identify cell types and states), clustering interpretation (marker gene and pathway analysis)and trajectories analysis.
Date: Thursday May 14th, 2020, 8:30 to 12:00
Instructors: Brendan Innes, Ruth Isserlin, Florian Wünnemann
8:30 - 10:00 - Session 1: Introduction/Lecture
- Note: No prior knowledge of bioinformatics or programming is expected for the lecture
- The lecture will cover the following topics
- Introduction to scRNA-seq technologies and data, including a talk by 10x genomics
- Standard analysis pipeline from raw data to cell type identification using clustering (Seurat & scClustViz)
- How to interpret cluster diagrams (e.g. tSNE/UMAP plots), including gene marker analysis, cell type annotation, pathway analysis
- Advanced methods, such as trajectory inference
10:00 - 10:20 - Break
10:20 - 12:00 - Session 2: Practical lab session
- Note: This is an optional attendance session for people who want to try the analysis tools learned in session 1 on their laptop.
- The lab will cover running core tools covered in session 1 using pre-packaged software and data, focusing on questions a cardiac developmental biologist will be interested in asking of a published single cell transcriptomics data set. This will include clustering, cell type annotation, marker gene identification and highlighting genes of interest and their expression levels across cell types. You will be provided with software to download on your laptop before the session. You should verify that your laptop is powerful enough to run the software before the practical session (any laptop purchased in the past few years should be sufficient as long as it has 8GB or more of RAM)
- Some bioinformatics, computer and programming knowledge is beneficial for the practical session to study advanced topics, but will not be required.
Human specimen workshop
This workshop will provide hands-on teaching of in anatomy and morphology of congenital heart disease. Participants will be able to examine a variety of specimens of CHD, accompanied by lectures.
Date: Thursday May 14th, 2020 AM
More details will come soon