title: Nematode.net update 2011: addition of data sets and tools featuring next-generation sequencing data.
abstract: Nematode.net (http://nematode.net) has been a publicly available resource for studying nematodes for over a decade. In the past 3 years, we reorganized Nematode.net to provide more user-friendly navigation through the site, a necessity due to the explosion of data from next-generation sequencing platforms. Organism-centric portals containing dynamically generated data are available for over 56 different nematode species. Next-generation data has been added to the various data-mining portals hosted, including NemaBLAST and NemaBrowse. The NemaPath metabolic pathway viewer builds associations using KOs, rather than ECs to provide more accurate and fine-grained descriptions of proteins. Two new features for data analysis and comparative genomics have been added to the site. NemaSNP enables the user to perform population genetics studies in various nematode populations using next-generation sequencing data. HelmCoP (Helminth Control and Prevention) as an independent component of Nematode.net provides an integrated resource for storage, annotation and comparative genomics of helminth genomes to aid in learning more about nematode genomes, as well as drug, pesticide, vaccine and drug target discovery. With this update, Nematode.net will continue to realize its original goal to disseminate diverse bioinformatic data sets and provide analysis tools to the broad scientific community in a useful and user-friendly manner.
authors.affiliation: The Genome Institute, Washington University School of Medicine, St Louis, MO 63108, USA.
authors.forename: John
authors.initials: J
authors.lastname: Martin
authors.forename: Sahar
authors.initials: S
authors.lastname: Abubucker
authors.forename: Esley
authors.initials: E
authors.lastname: Heizer
authors.forename: Christina M
authors.initials: CM
authors.lastname: Taylor
authors.forename: Makedonka
authors.initials: M
authors.lastname: Mitreva
mesh_terms: D000818:Animals; D057225:Data Mining; D030541:Databases, Genetic; D049751:Genome, Helminth; D023281:Genomics; D059014:High-Throughput Nucleotide Sequencing; D053858:Metabolic Networks and Pathways; D009348:Nematoda / Q000235:genetics* / Q000378:metabolism; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA; D012984:Software