Florian Mauffrey

👋 Hi! I'm a computational biologist 💻 and microbiologist 🦠.

I have worked for universities, health institutes and hospitals. I participated in various research and diagnostic projects. 🧬

Currently working at the University of Geneva, I am still interested in new opportunities

Papers Resources

Hi! I’m Florian.

I specialized in bacterial genomics and transcriptomics, supporting both research projects and diagnostic analyses for hospital clinicians. My expertise covers a wide range of microorganisms, from microbiota communities to pathogenic species and environmental bacteria.

With over seven years of experience, I’ve had the opportunity to collaborate with research laboratories, public health institutes, and hospitals across Canada and Switzerland.

Whether you’re navigating a complex research challenge, seeking new insights from high-dimensional biological data, or in need of reliable bioinformatics support, I bring a rigorous, research-driven approach to every collaboration.

Research projects

Genes activated by the zinc detector czcR in P. aeruginosa

Genomic snapshot of VRE in Switzerland

Microbiota of healthy dental pulp under the loup

Defining thresholds investigating P. aeruginosa hospital outbreak

Genomics analysis of outbreak MRSA strains

DNA markers for forensic investigations

Impact of offshore platforms using NGS

Plasmids typing with long reads sequencing

Metagenomics analysis of infected tissues

Foraminifera phylogenetic characterization

Comparison of WGS-based serotyping methods

Impact of mutations on azithromycin resistance

Pipelines, websites and applications

MiGEx

Simply analyze microbial genomes from raw fastq file to comprehensive report.

(currently in development...)

ChIP-seq_bact

Analysis of ChIP-seq data for bacterial strains. The pipeline aimed at being simple and straightforward.

NanoPlasm

Assembly, typing, and analyze of plasmid sequences from Nanopore long reads, as well as a combination of long and short reads.

METASPIKES

Identify potential microbial pathogens in clinical samples which integrates the use of spikes-in for absolute quantification.

MySwissBioinfo

Database of bioinformaticians based in Switzerland for network and connections development.

EpiPlot

Format patient movement data in order to create an interactive movement tracking graph and build a network.

Bioinformatics resources

Bioinformatics has become increasingly essential in modern biology, every biologist now benefits from having at least a basic understanding of computational tools. However, finding the right learning resources can often be time-consuming and overwhelming.

To help beginners get started, I’ve compiled a collection of useful resources that I’ve personally found valuable. These are not tutorials, but rather pointers to help you identify what to learn and where to start. There are many excellent tutorials available online, and I aim to update this list regularly to keep it relevant and helpful.

Resources

"Florian possessed remarkable professional knowledge and skills, as well as extensive experience in his field of activity, easily mastering the tasks and responsibilities entrusted to him."

Dominique S. Blanc
– University Hospital of Lausanne

"Florian has provided us with full satisfaction, both in terms of the quality of his work and his commitment. His professional knowledge and skills, particularly in the field of bioinformatics, have been greatly appreciated."

Jacques Schrenzel
– University hospital of Geneva

"Mr. Mauffrey has been able to assume his responsibilities to our complete satisfaction. My group and I would like to warmly thank him for his commitment and the quality of his work."

Diana Hall
– West Swiss University Center of Forensic Medicine