Introduction to Single Cell Spatial Transcriptomics

Introduction to Single Cell Spatial Transcriptomics

Workshop Dates: July 15^th – 16^th , 2025
Time: 9am-4pm.
Location: Room 101, Michael Smith Laboratories @ UBC

This two-day workshop will introduce participants to image-based single cell spatial transcriptomics experiments from initial planning to final analysis with lectures and practical sessions. The focus will be on the analysis of 10X Genomics Xenium datasets, but concepts and methodologies will be applicable to a variety of other single cell spatial transcriptomics technologies. Over the course of the two-day workshop participants will be able to:

– Understand practical issues regarding tissue preparation
–  Design an optimized gene panel
– Perform data clean-up and pre-processing
– Understand and apply basic cell segmentation methods
– Understand and implement spatial analysis with community tools