Journal article
deFUME: Dynamic exploration of functional metagenomic sequencing data
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark1
Bacterial Cell Factories, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark2
Department of Systems Biology, Technical University of Denmark3
Drug Resistance and Community Dynamics, Department of Systems Biology, Technical University of Denmark4
Functional metagenomic selections represent a powerful technique that is widely applied for identification of novel genes from complex metagenomic sources. However, whereas hundreds to thousands of clones can be easily generated and sequenced over a few days of experiments, analyzing the data is time consuming and constitutes a major bottleneck for experimental researchers in the field.
Here we present the deFUME web server, an easy-to-use web-based interface for processing, annotation and visualization of functional metagenomics sequencing data, tailored to meet the requirements of non-bioinformaticians. The web-server integrates multiple analysis steps into one single workflow: read assembly, open reading frame prediction, and annotation with BLAST, InterPro and GO classifiers.
Analysis results are visualized in an online dynamic web-interface. The deFUME webserver provides a fast track from raw sequence to a comprehensive visual data overview that facilitates effortless inspection of gene function, clustering and distribution. The webserver is available at cbs.dtu.dk/services/deFUME/and the source code is distributed at github.com/EvdH0/deFUME.
Language: | English |
---|---|
Publisher: | BioMed Central |
Year: | 2015 |
Pages: | 328 |
ISSN: | 17560500 |
Types: | Journal article |
DOI: | 10.1186/s13104-015-1281-y |
ORCIDs: | van der Helm, Eric , Genee, Hans Jasper , Malla, Sailesh and Sommer, Morten Otto Alexander |