Dual index particle markers for obtaining associated single cell count data and sequencing data

Abstract

Methods and compositions for preparing labeled cell populations are provided, for example, the labeled cell populations may be used in a regimen for obtaining associated single cell flow cytometry data and sequencing (e.g., multiomics) data. Aspects of the methods include combining a cell sample comprised of a plurality of cells with a labeling composition comprising a plurality of different double-indexed beads to produce a labeled cell population under conditions sufficient to stably bind cells in the cell sample to one or more double-indexed beads, each bead has a different fluorescent barcode and oligonucleotide barcode. In an embodiment, a flow cytometry and sequencing workflow is subsequently performed on the labeled cell population, where the obtained flow cytometry data may be associated with the sequencing data. Compositions for carrying out the methods are also provided.

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