circRNA_neuro

In this repository you will find source code and data sets related to our manuscript:

Circular RNAs arising from synaptic host genes during human neuronal differentiation are modulated by SFPQ RNA-binding protein

Michelle Watts (1,2), Marika Oksanen (1,2,3), Sanna Lejerkrans (1,2), Francesca Mastropasqua (1,2), Myriam Gorospe (3) and Kristiina Tammimies (1,2)

1. Center of Neurodevelopmental Disorders (KIND), Centre for Psychiatry Research, Department of Women’s and Children’s Health, Karolinska Institutet and Stockholm Health Care Services, Region Stockholm, Stockholm, Sweden.
2. Astrid Lindgren Children’s Hospital, Karolinska University Hospital, Region Stockholm, Stockholm, Sweden.
3. Laboratory of Genetics and Genomics, National Institute on Aging Intramural Research Program, NIH, Baltimore, MD, USA.

Correspondence: [email protected]

Currently available as a preprint at bioRxiv DOI: 10.1101/2022.10.05.510949

This resource is divided into the following sub-directories:

1. Differential Expression and Exon Usage Analysis

Here you will find raw count files for circRNAs (reads spanning back-spliced junctions), linear RNAs, and exons. The R markdown file includes all codes used for differential expression/exon usage analysis as well as gene ontology and correlative analyses.

2. Variant Analysis

This directory contains code and data files used to analyse variants in circRNA-forming exons.

3. Intron Analysis

Code and data required for analysis of circRNA flanking introns can be found in this directory.