Mouse brain · single-cell isoforms

Alternative splicing, cell type by cell type.

BrainSplicing is an open portal for exploring exon usage, splice junctions and isoforms across transcriptomic cell types of the mouse brain. Browse four reference single-cell datasets, from cortical atlases to Patch-seq neurons with matched electrophysiology and morphology.

4datasets
3cortical areas + whole brain
2Patch-seq datasets
A neuron whose dendrites branch into many colours; its axon leads into a cassette exon that is either included or skipped
Methods All splicing analyses were performed with splice-rs, an efficient single-cell splicing tool developed in the Sandberg lab.

Datasets

Each embedding is coloured by cell class or type.

Citing

If you use this portal, please cite:

Cell type and electrophysiology-associated RNA splicing in the mouse brain
Salomé Hahne*, Daniel Ramsköld*, Nil Campamà Sanz, Zikang Zhang, Maria Kasper and Rickard Sandberg#
* Equal contribution  ·  # Corresponding author

Please also cite the original publication of each dataset you use; references and DOIs are linked on each dataset card above.