MERFISH Mouse Brain Data Viewer

Work Group

Project Lead(s)

Project Status


Project Deliverables

Posit Connect interface that enables interactive exploration of the data


HMS Department


Project Description

In a collaboration with the Carroll laboratory, Dr. Moffitt and his team have applied MERFISH to sections of the mouse brain to study the role of the schizophrenia-associated C4 gene and the complement pathway during brain development. The goal of the study is to better understand the role of the complement pathway during normal brain development. The data consists of MERFISH measurements for a target panel of 250 genes measured at two time points: 5-day and 60-day old mice. CCB worked on connecting the dataset and analysis results with integrative visualization tools to enable interactive exploration of expression patterns and cell type annotations, differential expression between times points stratified by cell type and brain region, and spatial distribution of gene expression of complement pathway genes.