|
Inidividual, sorted cells
|
Smart-Seq followed by tagmentation |
Individual cells isolated in microliter droplets in a standard 96- or 384-well plate, sequencing libraries generated from each independent cell. Low throughput. |
Ramsköld et al., 2012 [6] |
|
Well-based
|
Seq-Well |
Cells captured in individual, subnanoliter wells with barcoded beads. Cellular barcoding of transcripts occurs during reverse transcription, material pooled for library preparation. Does not require specialized equipment beyond standard molecular biology instruments. |
Gierahn et al., 2017 [16] |
|
Droplet-based
|
InDrop, Drop-Seq, 10x Genomics Chromium |
Cells co-encapsidated in droplets alongside barcoded beads in a microfluidic device. In-droplet reverse transcription provides cellular barcodes, after which droplets are combined and pooled for library preparation. Most used technology in the studies discussed in this review. |
Macosko et al., 2015; Klein et al., 2015; Zhang et al. 2019 [20,21,116] |
|
Split-Pool
|
SPLiT-Seq |
Cells fixed, distributed between standard wells in a 96- or 384-well plate, and an initial barcode added to permeabilized cells via in situ reverse transcription. Subsequent ligation reactions after repooling and resplitting cells produces a combinatorial cell barcode, after which standard library preparation follows. Does not require specialized equipment beyond standard molecular biology instruments. |
Cao et al., 2017; Rosenberg et al., 2018 [22,23] |
