Details:

Alternative Title:
Genome Biol
Publisher's site:
http://dx.doi.org/10.1186/s13059-016-0969-1
Personal Author:
Flygare, Steven; Simmon, Keith; Miller, Chase; Qiao, Yi; Kennedy, Brett; ... More +
Flygare, Steven; Simmon, Keith; Miller, Chase; Qiao, Yi; Kennedy, Brett; Di Sera, Tonya; Graf, Erin H.; Tardif, Keith D.; Kapusta, Aurélie; Rynearson, Shawn; Stockmann, Chris; Queen, Krista; Tong, Suxiang; Voelkerding, Karl V.; Blaschke, Anne; Byington, Carrie L.; Jain, Seema; Pavia, Andrew; Ampofo, Krow; Eilbeck, Karen; Marth, Gabor; Yandell, Mark; Schlaberg, Robert; Less -
Description:
Background High-throughput sequencing enables unbiased profiling of microbial communities, universal pathogen detection, and host response to infectious diseases. However, computation times and algorithmic inaccuracies have hindered adoption. Results We present Taxonomer, an ultrafast, web-tool for comprehensive metagenomics data analysis and interactive results visualization. Taxonomer is unique in providing integrated nucleotide and protein-based classification and simultaneous host messenger RNA (mRNA) transcript profiling. Using real-world case-studies, we show that Taxonomer detects previously unrecognized infections and reveals antiviral host mRNA expression profiles. To facilitate data-sharing across geographic distances in outbreak settings, Taxonomer is publicly available through a web-based user interface. Conclusions Taxonomer enables rapid, accurate, and interactive analyses of metagenomics data on personal computers and mobile devices. Electronic supplementary material The online version of this article (doi:10.1186/s13059-016-0969-1) contains supplementary material, which is available to authorized users.
Subject:
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Infectious Disease Diagnostics
Metagenomics
Microbiome
Pathogen Detection
Software

Source:
Genome Biol. 17.;
Pubmed ID:
27224977
Pubmed Central ID:
PMC4880956
Document Type:
Journal Article;
Collection(s):
CDC Public Access
Main Document Checksum:
[+]
urn:sha256:f03fa043a48f03e96e468054985076187f7e8dfa840f6658e63aa333ccc4d52d
File Type:

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