5/5 This work was funded by the BMBF through the NUM as part of GenSurv project, done by our amazing teams at the Uniklinik Freiburg

4/5 With the code openly available: github.com/QUPI-IUK/fit... , it is easy to implement for continued monitoring and in the next pandemic.

GitHub - QUPI-IUK/fitnessGainEstimate: Producing SARS-CoV-2 fitness gain estimates based on genomic surveillance data

Producing SARS-CoV-2 fitness gain estimates based on genomic surveillance data - QUPI-IUK/fitnessGainEstimate

3/5 Using data from genomic surveillance, such as submitted to GISAID, it works on regional, national, and global SARS-CoV-2 datasets. It scales well with the number of included samples, giving results within minutes for datasets including millions of sequences.

2/5 Read all about it in our paper: pnas.org/doi/10.1073/... We estimate shifts in the viral fitness by looking at the genetic structure of the entire viral population over time, and show that we can detect the arrival of the major variants in this way.

Estimation of SARS-CoV-2 fitness gains from genomic surveillance data without prior lineage classification | PNAS

The emergence of SARS-CoV-2 variants with increased fitness has had a strong impact on the epidemiology of COVID-19, with the higher effective repr...

Ever wondered if we can determine the rise in SARS-CoV-2 variants without classifying the variants beforehand? Proud to present our latest advances in genomic surveillance analyses that don’t depend on phylogenetic trees! 🧵 1/5 #pandemicpreparedness#SARS-CoV-2

I just submitted a manuscript I started drafting in November 2019. Slowly but surely, I'm getting through the backlog COVID-19 caused. In my own system, it has designation FR1: the first manuscript I started working on after moving to Freiburg.

Just be glad it's not "available upon reasonable request"

A reminder for journalists in the Netherlands as well as elsewhere: Ronald Plasterk (presumably the next PM of the Netherlands) is a developmental biologist, NOT a microbiologist. This is very important.

We're looking for a PhD student to join our team and work how the dynamic structure of healthcare networks impacts the spread of AMR. www.uniklinik-freiburg.de/karriere/ste...

Great overview of the variety of “discourses of delay” used to avoid climate action www.carbonbrief.org/guest-post-h...