Semibulk RNA-seq analysis as a convenient method for measuring gene expression statuses in a local cellular environment.

ABSTRACT: When biologically interpretation of the data obtained from the single-cell RNA sequencing (scRNA-seq) analysis is attempted, additional information on the location of the single cells, behavior of the surrounding cells, and the microenvironment they generate, would be very important. We developed an inexpensive, high throughput application while preserving spatial organization, named "semibulk RNA-seq" (sbRNA-seq). We utilized a microfluidic device specifically designed for the experiments to encapsulate both a barcoded bead and a cell aggregate (a semibulk) into a single droplet. Using sbRNA-seq, we firstly analyzed mouse kidney specimens. In the mouse model, we could associate the pathological information with the gene expression information. We validated the results using spatial transc

SUBMITTER: Muto K 

PROVIDER: S-EPMC9468030 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature