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November 12, 2021
9:00 a.m. - 5:30 p.m.

Spatial Transcriptomics (ST) Workshop

Vet College
Schurman Hall Atrium & Lecture Hall 5

1-day workshop to discuss innovation in the area of spatial transcriptomics (ST). Registration required.

Led by faculty at Cornell with experience in various ST methodologies, together with the Directors of the Cornell Transcriptional regulation and gene expression (TREx), Bioninformatics, Genomics, and Imaging Core Facilities. In addition, we will hear talks from three companies presending their various ST platforms. Seminars will be provided by leading researchers specializing in ST, including:

  • Dr. Hongkui Zeng (The Allen Institute)
  • Dr. Andrew Ji (Mount Sinai School of Medicine)
  • Dr. Silas Maniaitis (NY Genome Center)

Zoom or in-person attendance available. Lunch provided to in-person attendees. In-person attendance is capped at 150 people. 


9am:  Introduction and welcome - Paula Cohen, Associate Vice Provost for Life Sciences

9:05:  Introduction to ST technologies - Iwijn De Vlaminck, Associate Professor, Meinig School of Biomedical Engineering

9:50:  Illuminating biology with spatially resolved transcriptomics – Virtual presentation by George Emanuel, PhD, Vizgen Scientific Co-founder and Director of Technology and Partnerships

10:20:  Methods for Understanding Spatial Genomic Organization - Warren Zipfel, Associate Professor, Meinig School of Biomedical Engineering

10:50  Break 

11:10:  Single-cell and spatial dissection of epidermal homeostasis and neoplasia - Andrew Ji, Mt Sinai School of Medicine

11:55:  Spatial biology without limits - Patrick Murphy, Ph.D., Science and Technology Advisor, 10XGenomics

12:25     Lunch

1:10:  Understanding brain cell type diversity- Hongkui Zeng, Allen Institute

1:55:  Tissue-based Proteomic and Transcriptomic Applications of NanoString’s GeoMx Digital Spatial Profiler, Matt Kane, Regional Account Manager, Nanostring

2:25:  Spatially resolved multi-modal analysis of neurodegenerative disease at scale - Silas Maniatis, Lead Scientist, Spatial Genomics & Engineering, New York Genome Center

3:10       Break 

3:30:  Case Study: a spatial transcriptomics pipeline from tissue sample, through wet-bench processing and into data management and handling 

             25 mins – talk from Madhav Mantri, DeVlaminck lab

             5 mins - questions

            1 hour – Round table discussion chaired by Jen Grenier, panelist including Madhav Mantri, Iwijn DeVlaminck, Peter Schweitzer, Qi Sun, Jarek Pillardy, Becky Williams, Warren Zipfel

5:00       End

Thanks to the following people for their help in putting together this exciting day: Praveen Sethupathy, Nilay Yapici, Jen Grenier, Iwijin De Vlaminck, Warren Zipfel, Becky Williams, Peter Schweitzer, and Paul Soloway.