Protecting RNA quality for spatial transcriptomics while improving immunofluorescent staining quality.

ABSTRACT: In comparison to bulk sequencing or single cell sequencing, spatial transcriptomics preserves the spatial information in tissue slices and can even be mapped to immunofluorescent stainings, allowing translation of gene expression information into their spatial context. This enables to unravel complex interactions of neighboring cells or to link cell morphology to transcriptome data. The 10× Genomics Visium platform offers to combine spatial transcriptomics with immunofluorescent staining of cryo-sectioned tissue slices. We applied this technique to fresh frozen mouse brain slices and developed a protocol that still protects RNA quality while improving buffers for immunofluorescent staining. We investigated the impact of various parameters, including fixation time and buffer composition, on

SUBMITTER: Hahn N 

PROVIDER: S-EPMC10234422 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature