Single cell sequencing using the 10X Chromium platform
The 10X Genomics Chromium single cell gene expression protocols allow one to look at gene expression (GEX) in thousands of cells from each sample. The Chromium setup is based on a single cell/nucleus suspension being pushed through a channel, where it meets up with a 10X barcoded gel bead. This results in the formation of a unique GEM partition - an oil bubble where RT and cDNA synthesis is performed - and all cDNA from a particular GEM will share the same 10X barcodes. An Illumina-compatible library is made from the cDNA and sequencing is typically performed on the Illumina NextSeq or NovaSeq platforms.