This three-day intensive boot camp starts with a fast-paced training session on single cell data collection and basic analysis workflows on the first half-day, then continues with in-depth sessions on advanced methods for phenotyping single cell populations using systems-biology approaches. The third day is dedicated to spatial transcriptomics data analysis, the study of microenvironmental interactions (e.g., tumor-immune), and select topics in AI applied to transcriptional data analysis.
By the end of the workshop, participants will be familiar with the following topics:
- Gene Expression Analysis of scRNA data (pre-processing, quality control, filtering, normalization)
- Cluster Analysis
- Cell Type Identification
- Regulatory Network Analysis
- Master Regulator Analysis
- Sequencing- and Imaging-based Spatial Transcriptomics technologies
- Spatial data analysis and integration with scRNASeq data
- Analysis of spatially resolved cell states and microenvironmental interactions
Audience and Requirements
Investigators from any institution and from all career stages are welcome to attend, and we particularly encourage trainees and early-stage investigators to participate. There are a few requirements to attend this training:
- Each participant must have an introductory background in statistics.
- Each participant must be familiar with basic R & Python.
- Each participant must have a free, basic RStudio Cloud account prior to the first day of the workshop for lab sessions.
- (Extra) Each participant will benefit from having a free basic Google/Gmail account to access Google Colab for additional material.
**NEW for 2026:** Optional Day 3 will be dedicated to Spatial Transcriptomics data analysis!
Attendees will have the option to attend either the:
- First 2 days of this course.
- All 3 days of this course.
- Just the last day of this course:
The 3rd day will feature a high-level session focused on spatial transcriptomics and select advanced topics in transcriptional data analysis. To ensure a productive learning experience, participants in Day 3 would benefit from having prior basic knowledge of transcriptional data analysis.
Additional Information
