Interrogating RNA and protein spatial subcellular distribution in smFISH data with DypFISH.

ABSTRACT: Advances in single-cell RNA sequencing have allowed for the identification of cellular subtypes on the basis of quantification of the number of transcripts in each cell. However, cells might also differ in the spatial distribution of molecules, including RNAs. Here, we present DypFISH, an approach to quantitatively investigate the subcellular localization of RNA and protein. We introduce a range of analytical techniques to interrogate single-molecule RNA fluorescence in situ hybridization (smFISH) data in combination with protein immunolabeling. DypFISH is suited to study patterns of clustering of molecules, the association of mRNA-protein subcellular localization with microtubule organizing center orientation, and interdependence of mRNA-protein spatial distributions. We showcase h

SUBMITTER: Savulescu AF 

PROVIDER: S-EPMC9017151 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature