Question: How does Cell Ranger correct for amplification bias?
Answer: Each transcript captured in the Single Cell 3' and V(D)J assay is labeled with a 10 bp Unique Molecular Identifier (UMI) in addition to a 10x Barcode (16 bp cell barcode). After sequencing, the UMI is used to distinguish sequenced reads that originate from unique mRNA molecules vs PCR duplicates.
Multiple reads that match the same UMI, 10x barcode and gene are collapsed to a single UMI count in the gene-barcode UMI count matrix.
For more information please see: Gene-Barcode Matrices.
Products: Single Cell 3', VDJ