Updated: November 10, 2023
Highlights
Different single-cell sequencing approaches have unique strengths and weaknesses, with cellular throughput and transcript coverage being generally anticorrelated.
Characterization of rearranged V(D)J sequences in lymphocytes is a valuable complement to single-cell analysis of adaptive immune responses.
Single-cell transcriptomics start to go beyond gene-level quantification and incorporate differential transcription start site and isoform usage in a cell-state-specific manner.
Long-read sequencing technologies are the next frontier in single-cell genomics at scale.
Abstract
Recent technological and algorithmic advances enable single-cell transcriptomic analysis with remarkable depth and breadth. Nonetheless, a persistent challenge is the compromise between the ability to profile high numbers of cells and the achievement of full-length transcript coverage. Currently, the field is progressing and developing new and creative solutions that improve cellular throughput, gene detection sensitivity and full-length transcript capture. Furthermore, long-read sequencing approaches for single-cell transcripts are breaking frontiers that have previously blocked full transcriptome characterization. We here present a comprehensive overview of available options for single-cell transcriptome profiling, highlighting the key advantages and disadvantages of each approach.
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