Standard RNA-seq measures average gene-expression levels, which is inadequate for heterogenous samples. Single cell sequencing does not require sorting your cells into small populations based on known markers.
Single cell sequencing allows you to administer any cell population – as a whole or pre-sorted – and create gene-expression profiles on each cell individually. Unsupervised clustering algorithms then visualize your cells in plots, placing cells with similar expression profiles together. You can discern between cell types and study the heterogeneity within those clusters.
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