fRNAkenseq: a fully powered-by-CyVerse cloud integrated RNA-sequencing analysis tool

Area of Science:

• Bioinformatics
• Genomics
• Computational Biology

Background:

• RNA sequencing (RNA-Seq) costs are decreasing, making it accessible to more biologists.
• Researchers often lack the bioinformatics resources for downstream RNA-Seq data analysis.
• Scalable, multi-platform tools are needed to handle large datasets from next-generation sequencing (NGS).

Purpose of the Study:

• To develop a user-friendly, interoperable RNA sequencing analysis tool for biologists.
• To address the challenge of managing and analyzing large-scale RNA-Seq data.
• To democratize bioinformatics resources in the era of big sequencing data.

Main Methods:

• Developed fRNAkenseq, a tool powered by CyVerse cyberinfrastructure.
• Utilized Application Programming Interfaces (APIs) for FASTQ-to-differential expression analysis.
• Integrated cloud storage and cross-talk with the CoGe platform for genome analysis.

Main Results:

• fRNAkenseq provides comprehensive and easy-to-use RNA-Seq analysis pipelines.
• The tool offers more robust enrichment pipelines than existing single tools.
• Users can analyze RNA-Seq data using 47,000 archived genomes in CoGe or upload their own.

Conclusions:

• fRNAkenseq democratizes RNA-Seq data analysis for biologists.
• Interoperability and cyberinfrastructure integration enhance scalability and usability.
• The tool empowers life science researchers to process large datasets effectively.