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deFUME: Dynamic exploration of functional metagenomic sequencing data
Eric van der Helm1, Henrik Marcus Geertz-Hansen2,3,4, Hans Jasper Genee5
1Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. evand@biosustain.dtu.dk.
BMC Research Notes
|August 1, 2015
Summary
The deFUME web server simplifies functional metagenomics data analysis for researchers. It provides a fast, visual overview of gene function, clustering, and distribution from raw sequence data.
Area of Science:
- Bioinformatics
- Genomics
- Molecular Biology
Background:
- Functional metagenomic selections are crucial for discovering novel genes from complex environmental DNA.
- Data analysis, particularly of large sequencing datasets, presents a significant bottleneck for researchers in the field.
Purpose of the Study:
- To develop an accessible web server for processing and analyzing functional metagenomics sequencing data.
- To address the time-consuming nature of data analysis for non-bioinformaticians.
Main Methods:
- The deFUME web server integrates read assembly, open reading frame prediction, and annotation using BLAST, InterPro, and Gene Ontology (GO) classifiers.
- It provides an easy-to-use, web-based interface for a streamlined analysis workflow.
Main Results:
- The deFUME web server processes raw sequencing data into a comprehensive, dynamic, and visual online interface.
- It facilitates effortless inspection of gene function, clustering, and distribution.
Conclusions:
- deFUME offers a rapid solution for transforming raw metagenomic sequence data into interpretable results.
- The web server enhances the efficiency of functional metagenomics research by simplifying data exploration and analysis.
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