After the analysis is completed, the tool generates a table of results including the organism name, any substrains found in the sample, the taxonomies of the bacteria, frequency information, information on virulence factors, and relative abundances. To use the BaseSpace app, researchers can upload their sequencing reads directly from an Illumina sequencer, their local storage, or the National Center for Biotechnology Information's Sequence Read Archive to the cloud and then run the GENIUS app. The app also does not have access to some of the customized algorithms and specialized databases, initially developed to meet specific customer needs, that are also available in the broader offering, she said. The full database contains data from about 22,000 strains and the app only has access to about 4,800. Like the broader application, the GENIUS app uses CosmosID's reference database of microbial information -called GeneBook - and NmerCE, to process metagenomic reads, but it only uses a subset of the bacterial information contained in GeneBook, Kelly Moffat, the company's director of product management and a senior bioinformatics engineer, told GenomeWeb. The solution is able to discriminate between pathogens from closely related species even at low concentrations without requiring prior knowledge of the diversity, complexity, or community composition of the sample. The company's main algorithm, NmerCE, uses a kmer-based approach to match data from input samples to its reference database and to categorize them by species, subspecies, and strain. Customers use the solution to analyze data from shotgun sequencing experiments and identify microorganisms present in metagenomics samples collected in hospitals and clinical laboratories. The app adds a cloud-based option to the company's existing portfolio, which includes a service offering and an appliance installation, and also provides an initial exposure to the company's full services and capabilities that will hopefully encourage new customers to try out its more detailed solutions, Michael Moritz, the company's chief operating officer, told GenomeWeb.ĬosmosID's GENIUS couples internally developed algorithms with company curated databases of information on bacteria, viruses, molds, and fungi. NEW YORK (GenomeWeb) – Bioinformatics firm CosmosID has released a new app on Illumina's BaseSpace Apps store that provides some of the capabilities of its Genome Identification Universal System (GENIUS) metagenomics analysis software and database. Advances in Clinical Genomics Profiling.
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