Comparative Metagenomics with MEGAN 2.0
Metagenomics 1 is a rapidly growing field of research that aims at studying uncultured organisms to understand the true diversity of microbes, their functions, cooperation and evolution, in environments such as soil, water,ancient remains of animals, or the digestive system of animals and humans. A main promise of metagenomics is that it will accelerate drug discovery and biotechnology by providing new genes with novel functions. The recent development of ultrahigh throughput sequencing technologies, which do not require cloning or PCR amplification, and can produce huge numbers of DNA reads at an affordable cost, has boosted the number and scope of metagenomic sequencing projects. Increasingly,there is a need for new ways of comparing multiple metagenomics datasets, and for fast and user-friendly implementations of such approaches.Here we describe some new features of our application MEGAN 2, 3, 4 which has been developed to fit large metagenomic datasets onto a taxonomical tree, thus leading to a visualization of the biodiversity of a given sample. MEGAN provides many options for fine tuning thresholds for high-scoring segment pair selection and taxon matching. These analyses have been enhanced by some new features such as ‘rate of discovery’, ‘functional assessment’ and‘meta-data analysis’. In addition to existing features of MEGAN the new version 2.0 allows the comparative analysis of different datasets which can be brought together and compared for taxonomic and functional content. We have developed an interactive and fully customizable chart viewer for MEGAN 2.0 that allows one to extract a number of different comparisons directly from the multiple comparison tree view. A main goal is to provide a tool that can be used to perform large analyses efficiently on a laptop.
Suparna Mitra Daniel C.Richter Alexander F.Auch Stephan C.Schuster Daniel H.Huson
Center for Bioinformatics (ZBIT), Sand 14, Tubingen, University of Tubingen, Germany 310 Wartik Laboratories, PennState University, Center for Comparative Genomics, Center for Infectiou Center for Bioinformatics (ZBIT), Sand 14, Tubingen, University of Tubingen, Germany
国际会议
The 7th Asia-Pacific Bioinformatics Conference(第七届亚太生物信息学大会)
北京
英文
832
2009-01-01（万方平台首次上网日期，不代表论文的发表时间）