CEL-Seq is a 3’-RNA sequencing technique in which only the 3’-UTR of the mRNA transcript is sequenced. This is enough to identify and quantify the gene’s expression. The protocol is based on poly_A enrichment but it is compatible with a wide range of mRNA quality and quantity.
In this protocol, samples are barcoded and pooled before linear amplification of mRNA via IVT. During the sample preparation, each mRNA transcript is tagged with a Unique Molecular Identifier (UMI), which is used during the bioinformatics analysis to collapse reads originating from the same transcript.