Data Club: An introduction into Spatial Transcriptomic Analysis; the pitfalls and opportunities
The Data Club is an informal forum for biologists and coders to discuss various aspects of their quantitative analyses. This month, let’s chat about spatial transcriptomics!
Title: An introduction into Spatial transcriptomic Analysis: the pitfalls and opportunities
Presenter: Michael Pitcher is a Senior Research Fellow in the School of Cancer and Pharmaceutical Studies, where he works on computational biology and bioinformatics approaches including single-cell analysis, proteomics, and spatial transcriptomics. His current role with the PharosAI project involves the development of ST pipelines for the demultiplexing and quality control of large scale multi-plex datasets.
At Data Club: Michael will give a short presentation introducing some of the fundamentals of spatial transcriptomics analysis, including useful packages, data quality control, cell typing approaches, and downstream spatial analyses. The session will mainly be discussion-based, with plenty of time to talk through common issues that come up in spatial transcriptomics (ST) analyses and how to get the most out of these datasets.
Requirements: A working knowledge of single-cell analysis would be helpful, but no prior experience with spatial transcriptomics is required. At this meeting, there may be opportunities for members to bring up related findings and challenges for further discussion. However, the Data Club will not conduct an ST analysis or explain specific code.
If you would like to present your findings at a future HAB data club or seminar, please contact the HAB (hab@kcl.ac.uk).