Alternative splicing analysis of scRNA-seq datasets with scQuint

Brief tutorial on exploration with interactive browsers:

Tabula Muris

Data source: Tabula Muris Consortium. "Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris." Nature 562.7727 (2018): 367-372.

Our results:

• Differentially spliced genes for each cell type
• cellxgene cell browser
• UCSC Genome Browser
• AnnData data objects

BICCN Mouse primary motor cortex

Data source: Yao, Zizhen, et al. "An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types." Biorxiv (2020).

Our results:

• Differentially spliced genes for each cell type
• cellxgene cell browser
• UCSC Genome Browser
• AnnData data objects

Citation

Benegas, G., Fischer, J., Song., Y.S. Robust and annotation-free analysis of alternative splicing across diverse cell types in mice. eLife 2022;11:e73520
DOI: 10.7554/eLife.73520