Related Experiment Video
Updated: Mar 20, 2026
High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions
Published on: March 5, 2022
Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression
Steven Flygare1, Keith Simmon2, Chase Miller1
1Department of Human Genetics, University of Utah, Salt Lake City, UT, USA.
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.
More Related Videos
09:13Gene Expression Profiling of Infecting Microbes Using a Digital Bar-coding Platform
Published on: January 13, 2016
09:52A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease
Published on: January 10, 2025