Table 1.
Single cell multiplex gene expression analysis strategies
| Techniques | target RNAs | With Amplification |
Throughput | References |
|---|---|---|---|---|
| single cell RNA-Seq | mRNAs with polyA tail | Yes | high (whole transcriptome) | 41,53 |
| single cell cDNA microarray (PCR-based) |
mRNAs with polyA tail | Yes | high (whole transcriptome with pre-designed probes) | 31,32,33,34,36 |
| single cell cDNA microarray (IVT-based) |
mRNAs with polyA tail | Yes | high (whole transcriptome with pre-designed probes) | 35 |
| single cell cDNA microarray (Combination of PCR & IVT) |
mRNAs with polyA tail | Yes | high (whole transcriptome with pre-designed probes) | 15,30,58,76 |
| single cell microRNA profiling | known microRNAs | Yes | high (up to several hundred microRNAs) | 76,77,78 |
| single cell multiplex qPCR | known mRNAs | Yes | low (up to several hundred genes) | 15,44,45,53,79 |
| single cell multiplex qPCR | known mRNAs | No | low (up to five genes) | 49 |
| single molecule RNA FISH | known mRNAs | No | low (up to several genes) | 80,81 |