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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
Published on: May 9, 2017
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RNAbrowse: RNA-Seq de novo assembly results browser
Jérôme Mariette1, Céline Noirot1, Ibounyamine Nabihoudine1
1Plate-forme bio-informatique Genotoul/Biométrie et Intelligence Artificielle, INRA, Castanet-Tolosan, France.
Plos One
|May 15, 2014
Summary
This study introduces RNAbrowse, a user-friendly software for exploring large transcriptome datasets. It enables researchers to visualize RNA sequencing data from general views down to specific details, facilitating deeper biological insights.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Next-generation sequencing (NGS) generates vast amounts of transcriptome data.
- Managing and visualizing diverse outputs like contigs, quantification, and annotations is challenging.
Purpose of the Study:
- To present a user-oriented environment for storing and visualizing de novo transcriptome assembly data.
- To facilitate exploration of RNA sequencing results from general to detailed views.
Main Methods:
- Development of a software package based on the biomart tool.
- Implementation of a top-down data exploration approach.
- Ensuring ease of installation and population with local data.
Main Results:
- A functional storage and visualization environment for transcriptome data.
- Seamless navigation from high-level graphical representations to specific data points.
- A publicly available software package under GNU GPL.
Conclusions:
- RNAbrowse provides an accessible solution for managing and interpreting complex RNA sequencing data.
- The software empowers researchers to explore their transcriptome assembly results efficiently.
- Facilitates deeper understanding of gene expression and variation from NGS data.
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