BIOMÉRIEUX EPISEQ®
Next Generation Sequencing (NGS) Data Analysis Platform
Easy-to-use applications built for clinical microbiologists, enabling accurate bacterial and fungal identification, effective outbreak management.
Disclaimer: Product availability varies by country. Please consult your local bioMérieux representative for product availability in your country.
NOT FOR DIAGNOSTIC USE
- OVERVIEW
- EPISEQ® CS MENU
- RESSOURCES
Overview
Fast and intuitive workflow from data to actionable results in just a few clicks
BIOMÉRIEUX EPISEQ® is a data-analysis platform that works directly with results extracted from sequencing instruments. In just three simple steps, you can obtain fast, actionable answers.
01. Upload
From your personal account, you can directly upload your Illumina FastQ and Oxford Nanopore Technologies fastA sequencing data.
Download the Illumina application note PDF.
(Min. coverage recommended: 45x; Min. sequencing length: 150 PE)
02. Analyze
With a simple subscription model, access a cloud service that performs all required steps: input validation, raw data quality assessment, alignment to the reference genome, genome assembly, variant identification, and mutation screening.
03. Report
Once the analysis is complete, an easy-to-interpret report is available, providing decisive data to investigate potential outbreaks or clusters.
The report confirms strain identification, determines genetic relatedness, delivers resistome, virulome, and plasmid information, and differentiates outbreak strains from endemic strains.
Contact us to request a trial and specify your interest in your message.
EPISEQ® ID
For bacterial and fungal identification
FOR RESEARCH USE ONLY
EPISEQ® ID is an easy-to-use web-based application for identifying bacteria and fungi from 16S and ITS broad-range PCR sequencing. Powered by Oxford Nanopore Technologies (ONT) sequencers data.
Ease of use
- Intuitive processing of ONT FASTQ files directly from the sequencer
- One-click analysis with access to historical sample searches
- Clear validation page for detected organisms
- Designed for microbiologists, no bioinformatics skills required
Microbiology Expertise You Can Trust
- Curated database optimized for full-length bacterial 16S and fungal ITS + D1/D2 regions using ONT long-read sequencing
- Comprehensive coverage of >3,000 bacteria and >1,200 fungi, including clinically relevant species
- Knowledge base built from curated public and private databases, reinforced by bioMérieux microbiology expertise (according to WHO, FDA ARGOS, and published literature)
- Confidence Score indicating identification reliability based on sequence quality, quantity, and similarity to reference data
EPISEQ® CS
For clinical pathogens outbreak monitoring
NOT FOR DIAGNOSTIC USE
EPISEQ® CS is a whole-genome sequencing (WGS)–based solution for bacterial typing and multidrug-resistant organism characterization, enabling early confirmation of healthcare-associated infection (HAI) outbreaks and timely activation of infection prevention and control (IPC) measures, while tracking resistance genes within healthcare settings.
Ease of Use
- One-click cluster detection and outbreak analysis
- Compatible with Illumina and Oxford Nanopore Technologies data
- Comprehensive sample characterization and genotyping
- Interactive phylogenetic visualizations (dendrograms, minimum spanning trees)
Microbiology Expertise / Antimicrobial Resistance
- Coverage of the vast majority of HAI-related pathogens
- Detection and alerting of plasmid-driven outbreaks, including across species
- Phylogenetic assessment against a reference database of up to 80,000 bacterial genomes
- Built-in wgMLST schemes per organism
- Display of conventional typing data where available (MLST, spa type, serotype, pathotype)
- Database of 4,000+ resistance genes with associated phenotypes
EPISEQ® CS Extensive List of Species
We have long been a trusted partner to healthcare professionals in the fight against antimicrobial resistance (AMR) and healthcare-associated infections (HAIs). We deliver innovative culture media, ID/AST reagents, and instruments for rapid, reliable microbiology testing, along with environmental control solutions and educational support.
With EPISEQ® CS, we now offer a dedicated application to support HAI management within healthcare facilities. This online tool makes NGS technology and one of the world’s most extensive bacterial strain databases readily accessible, providing critical insights to track, prevent, contain, and stop the spread of infectious diseases and HAIs.
bioMérieux has identified 15 bacterial and fungal species covering the majority of HAI-related organisms:
Bacteria
- Acinetobacter baumannii
- Clostridioides difficile
- Enterococcus faecalis
- Enterobacter cloacae complex
- Klebsiella oxytoca
- Staphylococcus aureus
- Burkholderia cepacia complex
- Escherichia coli / Shigella
- Klebsiella pneumoniae
- Enterococcus faecium
- Citrobacter freundii
- Pseudomonas aeruginosa
- Klebsiella aerogenes
- Serratia marcescens
Fungi
- Candidozyma auris
RESOURCES
Contact us to request a trial and specify your interest in your message.
