a database for spatially resolved transcriptomes

Dataset details

Technique MERFISH
Title Molecular, spatial, and functional single-cell profiling of the hypothalamic preoptic region
PMID 30385464
Description This study developed an imaging-based in situ cell-type identification and mapping method (MERFISH) and combined it with single-cell RNA-sequencing to create a molecularly annotated and spatially resolved cell atlas of the mouse hypothalamic preoptic region.
Source brain slices from adult C57Bl6/J male and female mice (aged 7-8 weeks)
Species mouse
No. genes 155 genes
No. cells 1000000 cells
Resolution single molecule
Data normalization Quantile normalization
Data availability scRNA-seq data are available at Gene Expression Omnibus (GEO) (GSE113576). MERFISH data are available at Dryad, and the analysis software is available at https://github.com/ZhuangLab/MERFISH_analysis.

Spatially variable genes identified by SpatialDE (Q-value<0.05)

ID Gene Species Sample P-value Q-value
ID Gene Species Sample P-value Q-value