scSpAS

Single-cell and Spatial Alternative Splicing. Integrating spatial transcriptomics, Nanopore, PacBio, in-house data and public datasets to map transcript isoform diversity across tissue architecture.

Human DMG Visium HD - Gene: NOC2L

Spatial Domain

2 mm

Selected event expression

Multi-layer Data Ecosystem

Event Types

Featured Analysis Modules

Gene / Event Browser

Query genes, APA events, splicing junctions and isoforms across example tissues and studies.

Event index

Selected Event Preview

Selected Event Spatial Usage

GTF Gene Structure

Spatial Event Explorer

Simultaneous visualization of host gene expression and spatial APA/splicing/isoform usage.

1. Host Gene Expression

2. Event Usage

3. Annotated Spatial Domains

4. Differential Usage Pattern

Genome / Isoform Browser

Usage Across Spatial Domains

Region-specific Analysis Parameters

Dataset Sample slice Event type Region

Region-specific Events

Host Gene Enrichment & RBP

Cell View

Single-cell Smart-seq2 splicing view for the mouse Tabula brain SCAS test dataset.

Cell Annotation UMAP

Selected Feature PSI UMAP

SJ / Event Details

SJ / Gene Structure

Cell-specific Analysis Parameters

Brain region Cell type SCAS event

Cell-specific SCAS Events

Cell-specific SJ Summary

RBP CLIP Validation

Inspect Mouse Tabula SS2 brain SCAS junctions and identify candidate RBP CLIP peaks overlapping the selected locus.

Brain region Cell type SCAS event Event search

RBP CLIP Binding Tracks

1x

SJ / Splicing Event Structure

Intersecting RBP Candidates

Download

Access standardized release files, sample folders, event matrices and analysis results.

Release Downloads

TSV/JSON release files for samples, datasets, indexes and analysis tables.

Sample-level Files

Coordinates, domains, event usage, expression subsets and functional annotations.

Mouse SS2 Example Data

Release files

Files are organized by release, dataset and sample. Demo/mock annotations are marked in the corresponding tables and can be replaced by downstream pipeline outputs.

Help and Contact

Contact the scSpAS team for database access, data interpretation and collaboration questions.

Authors

Dr. Zhifeng He^# 843462680@qq.com

Dr. Defu Liu^# 307686155@qq.com

Prof. Jing-wen Lin^1* lin.jingwen@scu.edu.cn

Prof. Lu Chen^1* luchen@scu.edu.cn

Author Affiliation

¹ Department of Laboratory Medicine, Key Laboratory of Birth Defects and Related Diseases of Women and Children of MOE, State Key Laboratory of Biotherapy, West China Second Hospital, Sichuan University, Chengdu 610041, China