2024 Spatial Biology Summit

Agenda

Playlist of all recorded talks here

Tuesday, September 10, 2024

Location: LKSC Berg Hall

7:30am

8:30am

8:45am

9:10am

9:35am

10:00am

10:15am

10:30am

11:00am

11:25am

11:50am

12:05pm

12:20pm

12:35pm

2:00pm

2:25pm

5:00pm

Check-in and Registration

Introduction (Mike Angelo)

Session 1: Applications of Spatial Biology I

Erin McCaffrey (NIH) [video]

Mapping the immunotopography and cellular networks of TB granulomas

Jonathan T.C. Liu (University of Washington) [video]

Nondestructive 3D pathology and analysis - a new perspective on cancer

Livnat Jerby (Stanford University)

From mapping to redirecting cell response and location

Noah Greenwald (Mike Angelo lab, Stanford University) [video]

Temporal and spatial composition of the tumor microenvironment predicts response to immune checkpoint inhibition

Hiroshi Ichise (Ron Germain lab, NIH)

Highly multiplex volumetric imaging Ce3D-IBEX reveals commensal-induced vagus-associated lymphoid tissues in the lung

Break

Session 2: Mass Spectrometry Imaging

Ramon Sun (University of Florida)

Blueprint towards understanding the entire metabolic landscape in 2D and 3D

Kylie Bemis (Northeastern University) [video]

Scaling spatially-aware machine learning for mass spectrometry imaging analysis in R

Danielle Scott (Peggi Angel lab, Medical University of South Carolina)

Linking Spatial Distribution of Core Fucosylated N-Glycans to Triple Negative Breast Cancer Outcomes

Benedikt Geier (Manuel Amieva lab, Stanford University)

Spatial Metabolomics of Low-Abundant Microbial Metabolites in a Novel Organoid Infection Model

Jake Griner (Sylvia Guglietta lab, Medical University of South Carolina)

Overcoming the Resolution Gap — Integration of Imaging Mass Cytometry and Mass Spectrometry Imaging

Lunch

Lunaphore (Rizwan Alam)

Session 2: Mass Spectrometry Imaging

Angela Kruse (Jeff Spraggins lab, Vanderbilt University)

Unveiling the diverse molecular landscape of human disease using multimodal imaging

Laura Sanchez (UC Santa Cruz) [video]

Mass Spectrometry Applications for Studying Ovarian Cancer

Happy Hour at the Rose & Crown

547 Emerson St, Palo Alto

Wednesday, September 11, 2024

Location: LKSC Berg Hall

8:30am

8:55am

9:20am

9:35am

9:50am

10:05am

10:30am

10:55am

11:10am

11:35am

11:50am

1:30pm

1:45pm

2:00pm

2:25pm

3:00pm

4:30pm

Session 3: Methods in Spatial Biology

Faisal Mahmood (Harvard University) [video]

Multimodal, Generative and Agentic AI for Tissue Image Analysis

Denis Schapiro (Heidelberg University Hospital)

From oncology to cardiology: Spatial omics technologies for topographic biomarker discovery

Edward Schrom (Ron Germain lab, NIH) [video]

Spatial Patterning Analysis of Cellular Ensembles (SPACE) discovers complex spatial organization at the cell and tissue levels

Jolene Ranek (Mike Angelo lab, Stanford University)

QUICHE reveals structural definitions of anti-tumor responses in triple negative breast cancer

Alex Wong (Peter Sorger lab, Harvard University)

3D Cyclic Immunofluorescence in Cleared Intact Epithelial Tissues with High - Plex Light-Sheet Microscopy

Break

Session 3: Methods in Spatial Biology

David Van Valen (Caltech) [video]

Foundation Models for Spatial Biology

Yuqi Tan (Garry Nolan lab, Stanford University)

SPACEc: A Streamlined, Interactive Python Workflow for Multiplexed Image Processing and Analysis

Session 4: Spatial Transcriptomics

Ken Chen (MD Anderson Cancer Center) [video]

LSGI: Interpretable Spatial Gradient Analysis for Spatial Transcriptomics Data

Izabella Zamora (Nir Hacohen lab, Broad Institute) [video]

PlastiNet: Understanding the Epithelial - Mesenchymal Transition Through Graphical Attention in Spatial Transcriptomics

Lunch

RareCyte (Magdalena Matusiak, Stanford University)
Glencoe Software (Erin Diel)

Session 4: Spatial Transcriptomics

Roy Maimon (Don Cleveland lab, UCSD) [video]

Cajal Challenge Accepted: Generating New Neurons in the Aging Brain

Emily Thomas (Daniel Royston and Jens Rittscher labs, University of Oxford) [video]

Spatial mapping of the human bone marrow in health and disease

Long Cai (Caltech)

What do we learn from spatial?

Break

Poster session lightning talks

Poster session

Thursday, September 12, 2024

Location: LKSC Berg Hall

8:30am

8:55am

9:20am

9:45am

10:00am

10:30am

10:45am

11:00am

11:25am

11:50am

Session 5: Applications of Spatial Biology II

Garry Nolan (Stanford University)

Abstract Cell Groupings at the TME and the Rise of the Machines

Guolan Lu (Stanford University)

Integrating Spatial Omics with Drug Imaging to Dissect Mechanisms of Drug Resistance in Solid Tumors

Felix Hartmann (German Cancer Research Center (DKFZ))

Spatial quantification of cellular metabolism in the human tumor microenvironment

Inna Averbukh (Mike Angelo lab, Stanford University)

Topological encoding of risk in ductal carcinoma in situ

Break

Session 5: Applications of Spatial Biology II

Cigdem Ak (Cancer Early Detection Advanced Research (CEDAR) Center, Oregon Health and Science University) [video]

Spatial Analysis of Androgen Receptor's Role in Prostate Cancer Across Multiple Scales

Bryan Cannon (Sean Bendall lab, Stanford University) [video]

Multimodal mapping of activated microglia in health & Alzheimer's Disease

Sizun Jiang (Harvard University) [video]

Lessons Learnt from Spatial. Also, do we really need everything everywhere at once?

Emma Lundberg (Stanford University)

Decoding human cell and tissue architectures - from spatial proteomics to whole cell modelling

Wrap-up (Sean Bendall)

Thank you to our generous sponsors!