The diversity of R2 start points gives complete coverage of the targeted portion of each transcript, which is typically ~650bp. The molecules carry the same 10x barcode and UMI sequences, but with different insert lengths, resulting in different R2 start points. A round of enrichment PCR targeting the 5′ end to the C-region, followed by enzymatic fragmentation results in a pool of molecules originating from the same transcript. One to several UMIs are captured for each V(D)J chain. The figure above shows 10x V(D)J read-pairs aligned to an assembled contig, illustrating the structure of the read data. Cell Ranger6.1 (latest), printed on Cell Ranger V(D)J Algorithms Overview
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