Transcriptome-wide alternative mRNA splicing analysis reveals post-transcriptional regulation of neuronal differentiation

Alternative splicing (AS) plays an important role in neuronal development, function, and disease. Efforts to analyze the transcriptome of AS neurons on a wide scale are currently limited. We characterized the transcriptome-wide AS changes in SH-SY5Y neuronal differentiation model, which is widely used to study neuronal function and disorders. Our analysis revealed global changes in five AS programs that drive neuronal differentiation. Motif analysis revealed the contribution of RNA binding proteins (RBPs) to the regulation of AS during neuronal development. We concentrated on the primary alternative splicing program that occurs during differentiation, specifically on events involving exon skipping (SE). Motif analysis revealed motifs for Polypyrimidine Tract Binding Protein 1 (PTB) and ELAV Like RNA Binding Protein 1 (HuR/ELAVL1) to be the top enriched in SE events, and their protein levels were downregulated after differentiation. shRNA Knockdown of either PTB and HuR was associated wi..., , , # Transcriptome-wide alternative mRNA splicing analysis reveals post-transcriptional regulation of neuronal differentiation

[https://doi.org/10.5061/dryad.k0p2ngfj3](https://doi.org/10.5061/dryad.k0p2ngfj3)

## Description of the data and file structure

Supplementary tables containing local splice variants (LSV) events generated using the rMATs pipeline. The data include 5 LSV subtypes analyzed in Differentiated vs undifferentiated SH-SY5Y cells as well as after PTB or HuR Knockdown experiments. For detailed bioinformatics analysis, please refere to the original article.

### Files and variables

#### File: Supplementary\_tables.xlsx

**Description:** Supplementary tables containing LSV data from RNA-seq experiments.

##### Variables

Supplementary table 1: exon skipping events after neural differentiation (Differentiated vs undifferentiated cells)

Supplementary table 2: mutually exclusive exon events after neural differentiation (Differentiated vs undifferentiated cells)

Supplement...