Spatial Transcriptomics

Take a close look at spatial transcriptomics with the Bioinformatics Core!

This three-day course offers an introduction to current spatial technologies, followed by an in-depth exploration of one experiment from end to end, including cell-cell interactions and niches, cell type differentiation between conditions, integration of spatial and single cell data, resegmentation, and numerous visualizations. UC Davis DNA Tech and Bioinformatics core specialists will discuss experimental design and sample preparation before guiding participants through a hands-on analysis pipeline composed of open source community tools and custom code.

A basic understanding of the command line and R is highly recommended for success in this course. We will conduct a very brief review on the first morning of the course, but we will not be providing full instruction in basic CLI or R. To get the maximum value out of the course, intermediate knowledge of CLI and R is needed, though beginners without this prior knowledge will still achieve a thorough understanding of single cell RNA-Seq techniques and analysis, but may not be able to conduct an experiment on their own. For a thorough grounding in bioinformatics prerequisites, we recommend beginners enroll in our introductory courses in CLI and / or R.

The registration fee is $1,700 for current students, postdocs, staff and faculty at Univeristy of California campus' or UC National Labs (LBNL, LANL, LLNL), $2,000 for other academic or non-profit participants and $3,400 for other participants. We accept credit cards, as well as UC recharge accounts, for payment.

This workshop will be held online from 9:00 am to 5:00 pm (PST) each day.