RAIphy: Phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles

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Nalbantoglu O. U., Way S. F., Hinrichs S. H., Sayood K.

BMC BIOINFORMATICS, vol.12, 2011 (SCI-Expanded) identifier identifier identifier

  • Publication Type: Article / Article
  • Volume: 12
  • Publication Date: 2011
  • Doi Number: 10.1186/1471-2105-12-41
  • Journal Name: BMC BIOINFORMATICS
  • Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus
  • Erciyes University Affiliated: No

Abstract

Background: Computational analysis of metagenomes requires the taxonomical assignment of the genome contigs assembled from DNA reads of environmental samples. Because of the diverse nature of microbiomes, the length of the assemblies obtained can vary between a few hundred bp to a few hundred Kbp. Current taxonomic classification algorithms provide accurate classification for long contigs or for short fragments from organisms that have close relatives with annotated genomes. These are significant limitations for metagenome analysis because of the complexity of microbiomes and the paucity of existing annotated genomes.