Year: 2025
Type: preprint
Abstract: A protocol describing the application of S2-omics on a colorectal cancer tissue section, designing 10x VisiumHD experiment. S2-omics is an end-to-end workflow that automatically selects regions of interest for spatial omics experiments using histology images. Additionally, S2-omics utilizes the resulting spatial omics data to virtually reconstruct spatial molecular profiles across entire tissue sections, providing valuable insights to guide subsequent experimental steps. Our histology image-guided design significantly reduces experimental costs while preserving critical spatial molecular variations, thereby making spatial omics studies more accessible and cost-effective. We demonstrate S2-omics’s utility in selecting a 6.5mm × 6.5mm ROI and predicting the cell-type labels for the whole slide image after conducting VisiumHD experiment on the selected ROI.
Authors: Musu Yuan, Kaitian Jin, Hanying Yan, Amelia Schroeder, Chunyu Luo, Sicong Yao, Bernhard Domoulin, Jonathan Levinsohn, Tianhao Luo, Jean R. Clemenceau, Inyeop Jang, Minji Kim, Yunhe Liu, Minghua Deng, Emma E. Furth, Parker Wilson, Anupma Nayak, Idania Lubo, Luisa Maren Solis Soto, Linghua Wang, Jeong Hwan Park, Katalin Susztak, Tae Hyun Hwang, Mingyao Li
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Funder: University of Pennsylvania
OpenAlex ID: W4414926923
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