Spatially Resolved Transcriptomic Analysis of Acute Kidney Injury in a Female Murine Model.

ABSTRACT:

Background

Single-cell sequencing technologies have advanced our understanding of kidney biology and disease, but the loss of spatial information in these datasets hinders our interpretation of intercellular communication networks and regional gene expression patterns. New spatial transcriptomic sequencing platforms make it possible to measure the topography of gene expression at genome depth.

Methods

We optimized and validated a female bilateral ischemia-reperfusion injury model. Using the 10× Genomics Visium Spatial Gene Expression solution, we generated spatial maps of gene expression across the injury and repair time course, and applied two open-source computational tools, Giotto and SPOTlight, to increase resolution and measure cell-cell interaction dynamics.

Results

SUBMITTER: Dixon EE 

PROVIDER: S-EPMC8819997 | biostudies-literature | 2022 Feb

REPOSITORIES: biostudies-literature