Table 1.

Comparison of commonly used RNA-seq protocolsa

ProtocolSMART-Seq2Cel-Seq2, MARS-seq, STRT10X Chromium, Drop-seq, Indrop
Capture methodPlate-basedPlate-basedDroplet-based
TranscriptFull-length3′ or 5′3′ or 5′
UMINoYesYes
ThroughputMediumMediumHigh
TCR/BCR annotationYesPossible with additional primer amplificationSpecific to method
Pooling stepLateEarly/LateEarly
  • aSome methods are not cited due to space constraints.