Pre-Mapping Device for Spatial Transcriptomics
Team Members:
Madison Tomison
Kalen Pecson
Edward McGee
Estefania Quintana-Lopez
Mentors:
Noorsher Ahmed, Ph.D.
Abstract
Spatial Transcriptomics has revolutionized the approach to understanding disease mechanisms and therapeutic responses by providing a comprehensive view of gene expression within tissue samples while preserving their spatial context. This project explores the re-examination of current spatial transcriptomic imaging techniques, introducing a microscope start-up business out of Stanford, California. This microscope, the Simplifying Quantitative Imaging Platform Development and Deployment (SQUID) model, acts as a new and inexpensive way to image cells spatially, though a variable of time and money still act as a constraint for current diagnostics. In parallel with the SQUID, a novel methodology via quick image pre-scanning using this project’s small-scale microscope, the OCTO, acts as an alternative for initial spatial information, allowing for a more specific imaging process when targeting desired areas under higher magnification. It is designed to expedite fine-grain spatial transcriptomic analysis, bridging the gap between affordability and functionality by cutting single-cell imaging time by hours. Through preserving spatial context and accelerating imaging processes, the OCTO, in parallel with the SQUID, empowers researchers, clinicians, and low-resource clinics to delve deeper into cellular interactions and functions. Leveraging LED illumination, custom microscope body construction, strategic part sourcing, and in-house code for higher quality imaging via inexpensive parts, OCTO represents a significant advancement in spatial transcriptomics research. With automated runs and data sequencing capabilities, the OCTO streamlines experimentation, paving the way for faster diagnosis, drug discovery, and therapeutic development.
Abet Addendum
Madison Tomison
Edward McGee
Kalen Pecson
Estefania Quintana-Lopez
The Team