AI-Driven Insights in Spatial Biology: Integrating Spatial Transcriptomics and Multi-Omics

Location:
Philadelphia

Date:
6th June 2025

Overview Venue Apply for a place

You are invited to this FREE 2.5 hour workshop.

AI-Driven Insights in Spatial Biology: Integrating Spatial Transcriptomics and Multi-Omics

Workshop Leader

Arvind Rao, Professor of Computational Medicine and Bioinformatics, University of Michigan Ann Arbor

Audience: Professionals in life sciences, pharma, and biotech with limited experience in AI and ML.

Course Objectives:

Understand the role of AI, ML, and deep learning in spatial biology and spatial transcriptomics.
Explore integration of multi-omics data from bulk, single-cell, and spatial transcriptomics.
Gain insights into foundation models and LLM (Large Language Model) agentic workflows for analysis.
Learn through practical case studies with actionable applications.

Course Agenda:

1. Introduction to Spatial Biology and Transcriptomics (20 min)
• Importance of spatial context in biological discovery.
• Overview of technologies: spatial transcriptomics, CODEX, and
multiplexed imaging.
• Applications in pharma: target discovery, biomarker identification, and patient stratification.
2. AI, ML, and DL in Spatial Transcriptomics and CODEX (40 min)
• Intuitive overview of AI and ML techniques: clustering, classification, and feature extraction.
• Role of deep learning in image-based segmentation and spatial relationships.
• Case study: Using AI to identify tumor-immune interactions.
3. Integration of Multi-Omics Data (30 min)
• Combining bulk, single-cell, and spatial transcriptomics for enriched analysis.
• Techniques for spatial deconvolution and cell-type mapping.
• Knowledge graphs to incorporate biological context.
• Case study: Multi-modal integration for immune cell profiling.
4. Foundation Models and LLM Agentic Workflows (40 min)
• Introduction to foundation models: tissue segmentation and spatial feature extraction.
• LLM workflows for automated spatial transcriptomics analysis.
• Future applications: integrating multi-omics and dynamic querying.
5. Wrap-Up and Future Directions (20 min)
• Emerging trends: multi-modal models and advanced AI techniques.
• Ethical considerations: transparency, reproducibility, and interpretability.
• Q&A and open discussion.

Venue

The Bellevue Hotel

Step into the heart of downtown Philadelphia, overlooking the iconic Broad Street and Avenue of the Arts. City Hall stands just steps away, surrounded by the city’s most famous historical landmarks and attractions. Enjoy eclectic neighborhoods, prominent city parks, new local shopping, and a famous food scene. The Bellevue knows the best Philly finds – old and new. Bellevue’s sophisticated rooms and suites offer a tranquil retreat from the energy of the city below. Towering ceilings, original details, and minimalist-chic design touches evoke the timelessness of a Parisian pied-à-terre—an unapologetic blend of classic and contemporary. With 100,000 square feet of brand-new, top-of-the-line fitness, wellness, and social space. Guests of The Bellevue Hotel will enjoy privileges at The Sporting Club during their stay.