TABLE II.

Comparative Analysis of Approached for Cell Type–Specific Analysis in the Ear.

	FACS	RNA/ribosomal pulldown	scRNA-seq
Dissociation	Required	Not required	Required
Cell type–specific resolution	Antibody/marker dependent	Cre-recombinase/ transgene dependent	Maximal
Accuracy of cell type–specific resolution	Antibody/marker dependent	Moderate. Informs of enrichment or depletion	Maximal
Applicability to tissue without the use of transgenic models	Applicable but limited based on antibody availability	Not applicable	Applicable
Induction of dissociation-based molecular changes	+	−	+
Representation of gene expression	Low variability between samples, high accuracy, high flexibility in selection of library preparation kits	Higher variability between samples, lower accuracy as to source of signal	High variability between samples, incomplete representation of transcript length, partial representation of gene expression
Number of cell types analyzed per experiment	Up to four	One	Unlimited (can analyze all cell types in one experiment)
Translational impact (eg, for analysis of surgical inner ear specimens)	Low – adult tissues are difficult to dissociate	Low – human tissues do not have the necessary transgenes for pulldown	High—single nucleus RNA-seq is feasible and of likely high impact
Cost	$$	$$	$$$