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Related Experiment Video

Updated: May 4, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

SplicePlot: a utility for visualizing splicing quantitative trait loci.

Eric Wu¹, Tracy Nance, Stephen B Montgomery

¹Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305-5324, USA.

Bioinformatics (Oxford, England)

|December 24, 2013

Summary

This summary is machine-generated.

SplicePlot is a new tool for visualizing genetic effects on RNA splicing. It helps researchers understand how genetic variations influence gene expression patterns at a population level.

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Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

RNA sequencing offers high-resolution data on alternative splicing and splicing quantitative trait loci (sQTL).
Limited tools exist for visualizing population-level, genotype-dependent splicing effects.

Purpose of the Study:

To introduce SplicePlot, a command-line utility for intuitive visualization of sQTLs.
To facilitate the investigation of genetic influences on alternative splicing and transcript structure.

Main Methods:

SplicePlot processes RNA sequencing reads (BAM format) and genotype data (VCF format).
The tool generates publication-quality Sashimi plots, hive plots, and structure plots.

Main Results:

Provides intuitive visualizations of genotype-dependent splicing effects.
Enables detailed study of genetic impacts on alternative splicing.

Conclusions:

SplicePlot enhances the understanding of the relationship between genetics and alternative splicing.
It offers a valuable resource for researchers studying transcript structure variations.