Table 1.

Current single-cell genomics techniques

	Spatial resolution	Temporal (of the same cell)	Number of molecular features measured	Scale (number of cells)	Sensitivity for mutation detection	False positives	References
DNA
MDA	No	No	++++	++	++	++	(8,9)
MALBAC	No	No	++++	++	+++	+++	(10)
DNA-FISH	Yes	No	+	++	++++	+/−	(11)
MIDAS	No	No	++++	++	+++	++	(12)
RNA
Plate-based RNA-seq	No	No	+++	++	? (if whole transcript)	?	(13–18)
Microfluidics RNA-seq	No	No	+++	+++	? (if whole transcript)	?	(19)
Droplet-based RNA-seq	No	No	+++	++++	?	?	(20–22)
In-situ sequencing	Yes	No	++	+++	?	?	(23–25)
RNA-FISH	Yes	No	+	+++	++	+/−	(26)
Epigenetic
Methylation	No	No	+++	++	N/A	N/A	(27,28)
ATAC-seq	No	No	++	+++	N/A	N/A	(29)
Hi-C	No	No	++	++	N/A	N/A	(30)
Mass cytometry	Yes	No	+	+++	N/A	N/A	(31,32)
Live cell imaging	Yes	Yes	+	+	N/A	N/A	(33)