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Updated: Oct 3, 2025
08:35
Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
Published on: June 24, 2021
5.8K
ASES: visualizing evolutionary conservation of alternative splicing in proteins.
Diego Javier Zea1, Hugues Richard2, Elodie Laine1
1Laboratoire de Biologie Computationnelle et Quantitative (LCQB), CNRS, IBPS, Sorbonne Université, 75005 Paris, France.
Bioinformatics (Oxford, England)
|February 21, 2022
Summary
ASES is a novel tool for analyzing alternative splicing (AS) and its impact on protein diversity across evolution. It aids in understanding evolutionary transcriptomics by visualizing splicing conservation and reconstructing transcript evolution.
Area of Science:
- Evolutionary biology
- Genomics
- Bioinformatics
Background:
- Alternative splicing (AS) significantly contributes to protein diversity.
- Understanding the evolutionary dynamics of AS is crucial for comparative transcriptomics.
Purpose of the Study:
- To introduce ASES, a versatile tool for assessing the evolutionary impact of AS, transcription initiation, and termination on protein diversity.
- To enable comparative transcriptomics analyses by identifying exon and transcript orthogroups.
Main Methods:
- ASES computes an evolutionary splicing graph using exon orthogroups.
- It reconstructs a phylogenetic forest of transcripts to date their evolutionary appearance.
- The tool utilizes a web server with an interactive interface for data visualization and retrieval.
Main Results:
- ASES facilitates direct evaluation of alternative splicing conservation.
- It allows exploration of evolutionary events shaping transcriptomes.
- The server enables visualization and retrieval of amino acid sequences for 3D structure prediction.
Conclusions:
- ASES provides a comprehensive platform for evolutionary transcriptomics research.
- It enhances the study of protein diversity shaped by splicing and transcriptional events.
- The tool supports subsequent analyses such as 3D protein structure prediction.
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