Characteristics and applications | Drop-Seq, In-Drop | STRT-seq, SMART-seq2 | CEL-seq, MARS-seq | CytoSeq | SPLiT-seq | Microchip |
---|---|---|---|---|---|---|
Approaches | Microdroplet approaches | Microwell plate-based approaches | Microwell plate-based approaches | Microwell plate-based approaches | Other approaches | Microfluidics |
Single cell separation and capture | Microdroplets | FACS | FACS | FACS | None | Micofluidics |
Number of cells in a single run | 5000–10,000 | 50–500 | 500–2000 | 100–10,000 | > 100,000 | 48–96 |
Sensitivities of gene detection | Cell line: 5000 genes per cell Tissue: 1000–3000 genes per cell | Cell line: 7000–10,000 genes per cell Tissue: 2000–6000 genes per cell | Cell line: 7000–10,000 genes per cell Tissue: 2000–6000 genes per cell | Cell line: 7000–10,000 genes per cell Tissue: 2000–6000 genes per cell | Cell line: 7000–10,000 genes per cell Tissue: 2000–6000 genes per cell | Cell line: 6000–9000 genes per cell@@@Tissue: 1000–5000 genes per cell |
Strength | High throughput; Low cost; Easy to operate; High degree of automation | Flexible optimization; Low requirements for cell sample size; Many quality control points; Full cDNA sequencing; High sensitivity of gene detection | Low cost; High throughput; Conducive to targeted capture | Low cost; High throughput; Larger number of samples processed at one time; High capture rate; Low requirements for sample preparation | Capture maximum 96 cells in a single run; Low technical requirements; Short experiment period; Full cDNA sequencing; High sensitivity of gene detection | |
Weakness | High requirements for cell number and activity; 3’ sequencing instead of full cDNA sequencing; Lack of quality control points | Manual operation; High technical requirements; Low throughput and high cost; Time consuming | High requirement for cell number; 3’ sequencing instead of full cDNA sequencing; Complicated procedure | 3’ sequencing instead of full cDNA sequencing | Lack of quality control points; Low throughput; High costs | |
Application | Clustering and lineage determination in large-scale cell samples; Cells with diameter < 40 µm | Experienced researchers; In-depth analysis of small sample size | Clustering and lineage determination in large-scale cell samples; Cells with diameter < 20 µm | Clustering and lineage of large-scale cell sample; In-depth analysis of small sample size | In-depth analysis of small sample size Cells with diameter of 5–25 μm | |
Commercial platform | 10 × Genomics | – | BD rhapsody | – | Fluidigm C1 |