Back to Search
Start Over
A spatial atlas of inhibitory cell types in mouse hippocampus
- Publication Year :
- 2018
- Publisher :
- Cold Spring Harbor Laboratory, 2018.
-
Abstract
- Understanding the function of a tissue requires knowing the spatial organization of its constituent cell types. In the cerebral cortex, single-cell RNA sequencing (scRNA-seq) has revealed the genome-wide expression patterns that define its many, closely related cell types, but cannot reveal their spatial arrangement. Here we introduce probabilistic cell typing by in situ sequencing (pciSeq), an approach that leverages prior scRNA-seq classification to identify cell types using multiplexed in situ RNA detection. We applied this method to map the inhibitory neurons of hippocampal area CA1, a cell system critical for memory function, for which ground truth is available from extensive prior work identifying the laminar organization of subtly differing cell types. Our method confidently identified 16 interneuron classes, in a spatial arrangement closely matching ground truth. This method will allow identifying the spatial organization of fine cell types across the brain and other tissues.
- Subjects :
- 0303 health sciences
Cell type
Ground truth
Interneuron
RNA
Computational biology
Biology
Hippocampal formation
03 medical and health sciences
Laminar organization
0302 clinical medicine
medicine.anatomical_structure
Cerebral cortex
medicine
030217 neurology & neurosurgery
Spatial organization
030304 developmental biology
Subjects
Details
- Language :
- English
- Database :
- OpenAIRE
- Accession number :
- edsair.doi.dedup.....67e0f745a65c0272b5c7538957fc372d
- Full Text :
- https://doi.org/10.1101/431957