Example Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH) data from the mouse colon

Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH) is a massively multiplexed single-RNA-molecule imaging technique capable of spatially resolved single-cell transcriptomic profiling of thousands of genes in millions of cells within intact tissue slices. Initially introduced for brain tissues, MERFISH has since been extended to other tissues, where rapid RNA degradation during the preparation process can pose challenges. The companion paper to these example data outlines the application of MERFISH in one such challenging tissue, the mammalian gastrointestinal tract. The example data contained here represent raw MERFISH images and associated metadata necessary to illustrate the analysis pipeline that identifies RNAs from such data.