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Interactive design and validation of antibody panels using single-cell RNA-seq atlases

Watson, M.; Latour, S.; Abazari, G.; Geuenich, M. J.; Poon, E.; Cao, R.; Mrkonjic, M.; McGuigan, A. P.; Jackson, H. W.; Campbell, K. R.

2024-10-18 bioinformatics
10.1101/2024.10.15.618479 bioRxiv
Show abstract

Single-cell RNA-sequencing holds promise for identifying novel markers of cellular variation for antibody-based technologies. However, antibody panel design is often difficult due to multiple experimental and biological constraints. We introduce Cytomarker, an interactive platform enabling human-in-the-loop design of antibody panels from single-cell transcriptomic data. We use Cytomarker to spatially profile human mammary tissue subpopulations and develop a novel antibody screening approach to validate granular subpopulation predictions across >3.5M cells.

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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.