New Preprint 💫: *Projected sudden step-wise increase in risk of large measles outbreaks in the Netherlands as susceptible children enter secondary school in 2025/26* on MedRxiv doi.org/10.1101/2025... (NOT YET PEER REVIEWED)

Our paper on the transmission dynamics of Noro- and Enterovirus during the COVID-19 pandemic just came out: www.sciencedirect.com/science/arti... We measured wastewater viral loads, estimated Re and assessed the impact of non-pharmaceutical interventions on the transmission of these pathogens.

New Preprint! Co-led with Nicolas Banholzer *The relative contribution of close-proximity contacts, shared classroom exposure and indoor air quality to respiratory virus transmission in schools* on MedRxiv. doi.org/10.1101/2025... (YET TO BE PEER REVIEWED)

Just when you think you are beginning to understand a sport...

📣 Funded 3.5yr PhD opportunity (UK tuition fee rate) in @hpruezi.bsky.social @liverpooluni.bsky.social. #PhDSky 🧪 On "Optimising testing & control strategies in the early stages of infectious disease outbreaks" #IDSky #EpiSky ⏳ Deadline to apply: 07 Jul 2025 🔗: www.liverpool.ac.uk/courses/opti...

In this project led by James Munday, we quantified the post-sampling degradation of viral RNA in wastewater. Taking into account this degradation is core towards unbiased quantification of epidemiological dynamics based on wastewater data.

We have a new preprint 📝 *Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates* Now on bioRxiv doi.org/10.1101/2025... with @tanjastadler.bsky.social, trj2.bsky.social, Christoph Ort and others

Come work with us! We're looking of postdoc(s) with experience in bacterial genomics and interest in mathematical modelling to work on bacterial ecology and evolution in the context of public health. tinyurl.com/n34vzszu

New preprint 📝. We used a bayesian time-series model to quantify contributions of various factors to variation in the SARS-CoV-2 concentration in 🇨🇭 wastewater. We then analyse geographic correlations in adjusted conc. using DTW distances. doi.org/10.1101/2025...

Check out our new perspective in Epidemics on wastewater surveillance and pandemic prep. It came out of a workshop spearheaded by Kath O'Reilly and @leondanon.bsky.social. What can we do? what could we do better? And when is it most likely to be useful? doi.org/10.1016/j.ep...

Other (Barcelona, Spain) We seek a highly motivated data scientist to co-create harmonised datasets and dashboards for decision-support. More details: http://iddjobs.org/jobs/we-seek-a-highly-motivated-data-scientist-to-co-create-harmonised-datasets-and-dashboards-for-decision-support

The bad news for drivers is that not only do cyclists annoy them, but they will outlive them too- considerably and with a better quality of life. That is unless they succeed in terrifying them off the roads- they are giving it a good go- see bottom line on the chart.

📣 #fundedPhD in "Modelling salivo-surveillance for detecting population immunity, transmission dynamics & changes in vaccine effectiveness" #IDsky #EpiSky #PhDSky 🧪 👥 Supervised by @3113n.bsky.social + colleagues at Uni. of Bristol & UKHSA 🗓️ Closes 27 Jan 2025. Interviews Mar 2025. Start Sep 2025.

Postdoc (Berlin, Germany) Vaccine or outbreak modelling. With Stefan Flasche at @cmmid More details: http://iddjobs.org/jobs/experienced-postdoc-in-vaccine-or-outbreak-modelling

Congrats to team member Carl Pearson and his co-authors @lucygoodfellow.bsky.social and @mert0248.bsky.social. An important tool for a pervasive problem in modeling infectious disease data www.medrxiv.org/content/10.1...

We're incredibly honoured to be winners of the Swiss Academies of Arts & Sciences National Prize for Open Research Data 2024! 🎉🎊 "Pathoplexus ensures open access and provides a cutting-edge infrastructure for interactive and programmable data exploration" akademien-schweiz.ch/en/medien/pr... 1/2

Position with @mert0248.bsky.social and me in modelling the potential impact of next generation flu vaccines: iddjobs.org/jobs/modelli...

A group of us have been working on creating a repository of models and epidemiological parameters ready-to-use in future epidemics, with a focus on high-threat pathogens. Today our Lassa review is out: www.sciencedirect.com/science/arti.... More on the overall project here: bit.ly/imperial-PERG

Our new GenSpectrum.org dashboard has finally launched! Using Influenza H5N1, RSV and SARS-CoV-2 data from INSDC and West Nile virus data from @pathoplexus.org, it enables fast and interactive analyses of genome sequencing data similar to CoV-Spectrum. 1/5

New study tracking epidemic dynamics using cycle threshold values (a proxy for viral load) from routine hospital and community testing. This is the next step of our work from 2021 showing that the population distribution of Ct values over time is related to SARS-CoV-2 epidemic growth rates.

If there are any users of the socialmixr R package for estimating contact matrices here: we're planning some substantial changes to the user interface and would love to hear your thoughts/views. Please feel free to comment at github.com/epiforecasts...

Had to abandon my bike at a friend's flat last night. I think the towel I put over my saddle did the trick!

Now seems a good time to collate a list of reputable, trustworthy public health voices. UK Public Health Starter Pack ⤵️ (Work in progress - will add suggestions!) go.bsky.app/Tuf8yqX

NEW: The closure of youth clubs in the 2010s led to increased offending and worse GSCE results. Teenagers entitled to free school meals were most affected. Read @carmenvillaecon’s briefing: https://buff.ly/4fIiRK7 Read the working paper: https://buff.ly/3APnHq6

New Paper! School-household networks provide a basis for periodic large Measles outbreaks in the Netherlands - Our new paper out now in @PLOSMedicine doi.org/10.1371/jour... 1/8

'This study highlights the potential of WBS as a potent tool for gauging the epidemiological landscape of DENV and CHIKV in Portugal, where autochthonous cases have not yet been detected.' www.sciencedirect.com/science/arti...

New Paper! School-household networks provide a basis for periodic large Measles outbreaks in the Netherlands - Our new paper out now in @PLOSMedicine doi.org/10.1371/jour... 1/8

The Lancet Microbe on @pathoplexus.org (including a bit of yours truly) www.thelancet.com/journals/lan...

It has been a real pleasure to engage with the fabulous scientists at #GEOMED24 this week. So much fascinating science and great conversation. And a delight to share and discuss two of my own projects with a smart, rigorous and kind community! Slides here: jdmunday.github.io/index.html#Conferences

From Science Magazine: “We believe that building trust through transparency is essential for encouraging broader participation in data sharing,” says Pathoplexus co-founder Anderson Fernandes de Brito @andersonfbrito.bsky.social science.org/content/arti... #Pathoplexus #OpenScience

A very exciting initiative from some colleagues of mine. Excellent platform run by excellent folk!