High-Plex Multiomic Analysis in FFPE Tissue at Single-Cellular and Subcellular Resolution by Spatial Molecular Imaging
He, S.; Bhatt, R.; Birditt, B.; Brown, C.; Brown, E.; Chantranuvatana, K.; Danaher, P.; Dunaway, D.; Filanoski, B.; Garrison, R. G.; Geiss, G.; Gregory, M. T.; Hoang, M. L.; Killingbeck, E. E.; Kim, T. K.; Kim, Y.; Korukonda, M.; Kutchma, A.; Lee, E.; Lewis, Z. R.; Liang, Y.; Nelson, J. S.; Ong, G.; Perillo, E.; Phan, J.; Phan-Everson, T.; Piazza, E.; Rane, T.; Reitz, Z.; Rhodes, M.; Rosenbloom, A.; Ross, D.; SATO, H.; Wardhani, A. W.; Williams-Wietzikoski, C.; Wu, L.; Beechem, J. M.
Show abstract
The Spatial Molecular Imaging platform (CosMxTM SMI, NanoString Technologies, Seattle, WA) utilizes high-plex in-situ imaging chemistry for both RNA and protein detection. This automated instrument provides 1000s of plex, at high sensitivity (1 to 2 copies/cell), very low error rate (0.0092 false calls/cell) and background ([~]0.04 counts/cell). The imaging system generates three-dimensional super-resolution localization of analytes at [~]2 million cells per sample, four samples per run. Cell segmentation is morphology-based using antibodies, compatible with FFPE samples. Multiomic data (980 RNAs, 108 proteins) were measured at subcellular resolution using FFPE tissues (non-small cell lung (NSCLC) and breast cancer) and allowed identification of over 18 distinct cell types, 10 unique tumor microenvironments, and 100 pairwise ligand-receptor interactions. Over 800,000 single cells and [~]260 million transcripts data are released into the public domain allowing extended data analysis by the entire spatial biology research community.
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