title: deFUME: Dynamic exploration of functional metagenomic sequencing data.
abstract: BACKGROUND
  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.
  
  
  RESULTS
  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.
  
  
  CONCLUSIONS
  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.
authors.affiliation: Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. evand@biosustain.dtu.dk.
authors.forename: Eric
authors.initials: E
authors.lastname: van der Helm
authors.affiliation: Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. HMGH@novozymes.com.|Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, 2800, Lyngby, Denmark. HMGH@novozymes.com.|Novozymes A/S, 2880, Bagsværd, Denmark. HMGH@novozymes.com.
authors.forename: Henrik Marcus
authors.initials: HM
authors.lastname: Geertz-Hansen
authors.affiliation: Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. hansgenee@gmail.com.
authors.forename: Hans Jasper
authors.initials: HJ
authors.lastname: Genee
authors.affiliation: Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. malla@biosustain.dtu.dk.
authors.forename: Sailesh
authors.initials: S
authors.lastname: Malla
authors.affiliation: Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2970, Hørsholm, Denmark. msom@bio.dtu.dk.|Department of Systems Biology, Technical University of Denmark, 2800, Lyngby, Denmark. msom@bio.dtu.dk.
authors.forename: Morten Otto Alexander
authors.initials: MO
authors.lastname: Sommer
mesh_terms: D000465:Algorithms; D000818:Animals; D002417:Cattle; D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods*; D004926:Escherichia coli / Q000235:genetics; D005243:Feces; D020407:Internet; D008239:Lysine / Q000378:metabolism; D056186:Metagenomics / Q000379:methods*; D016366:Open Reading Frames; D012984:Software; D014584:User-Computer Interface
chemical_list: D008239:Lysine