ada-w-yan.bsky.social
@ada-w-yan.bsky.social
Reposted
New paper! "Modelling the dynamics of SARS-CoV-2 during the first 14 days of infection" - we use Approximate Bayesian Computation and the theory of stochastic boundary hitting to provide a possible explanation for infectious doses in challenge data.

www.sciencedirect.com/science/arti...
Modelling the dynamics of SARS-CoV-2 during the first 14 days of infection
Interpreting the viral mechanism of SARS-CoV-2 based on the human body level is critical for developing more efficient interventions. Due to the limit…
www.sciencedirect.com
July 22, 2025 at 9:58 PM
Reposted
We're hiring a modelling postdoc at PSI Oxford for two exciting projects: 1) modelling the early immune responses to Nipah vaccination, and 2) joining the PRESTO team working on immunobridging in vaccine evaluation studies.

tinyurl.com/5abbxrjh

Get in touch for more info! Deadline 4th August.
Job Details
tinyurl.com
July 11, 2025 at 11:32 AM
Reposted
New preprint!
We use pooled Ct values from mosquito surveillance to estimate West Nile virus prevalence—without binarising the data.
Joint work with Ian Marchinton, Joseph R. Fauver & James Hay.
Check it out: www.biorxiv.org/content/10.1...
Tracking West Nile virus dynamics using viral loads from trapped mosquitoes
West Nile virus (WNV) persists in an enzootic cycle between birds and mosquitoes. Human infections are incidental and usually sub-clinical with some cases of neuroinvasive disease. Mitigation relies on surveillance to guide decision making, including RT-qPCR testing pools of mosquitoes. Cycle threshold (Ct) values from these pools\---|semi-quantitative proxies for viral load\---|are binarised to estimate WNV prevalence in mosquitoes as a proxy for human risk. We showed that Ct value variation in Colorado and Nebraska (2022-2024) cannot be explained by laboratory factors, suggesting a role for biological and epidemiological mechanisms. We developed a multiscale model linking pooled Ct values to mosquito viral kinetics, bird-to-mosquito transmission, and seasonal force of infection. A novel method estimating WNV prevalence using pooled Ct values outperformed existing approaches at high prevalence. We demonstrate the importance of treating environmental viral load samples as quantitative, as binarising masks key information for arbovirus surveillance and risk mitigation. ### Competing Interest Statement The authors have declared no competing interest. Wellcome Trust Early Career Award, grant 225001/Z/22/Z UNMC VCR
www.biorxiv.org
July 7, 2025 at 8:38 AM
Reposted
Please circulate to anyone interested: Senior Statistician role at UK Health Security Agency national Real-time Syndromic Surveillance Team. This would be a great job for any modellers or statisticians with an interest in surveillance.

www.healthjobsuk.com/job/UK/Londo...
Job vacancy: Senior Statistician, UK Health Security Agency, Birmingham | trac.jobs
www.healthjobsuk.com
July 7, 2025 at 3:04 PM
Reposted
Important result from CDC research team: H5N1 flu virus from a dairy farm worker transmitted by direct contact in ferrets with 100% efficiency (6/6 animals infected) and by droplets/aerosols in ferrets, physically separated, with 50% efficiency (3/6 animals infected).

wwwnc.cdc.gov/eid/article/...
Avian Influenza A(H5N1) Isolated from Dairy Farm Worker, Michigan, USA
Avian Influenza A(H5N1) Isolated from Dairy Farm Worker, Michigan
wwwnc.cdc.gov
June 9, 2025 at 6:18 PM
Reposted
New postdoc positions with a number of exciting epidemic modelling projects opening in our Unit at @pasteur.fr in beautiful Paris. Deadline for applications: 26th June.
research.pasteur.fr/en/job/postd...
Postdoctoral positions in epidemic mathematical/statistical modelling - Research
Job description We are recruiting postdocs to contribute to research projects in the Mathematical Modelling of Infectious Diseases Unit, at Institut Pasteur in Paris. The candidates will be expected t...
research.pasteur.fr
June 5, 2025 at 5:22 AM
Reposted
Great opportunity to work on influenza virus-host factor interactions in a brand new lab at Imperial (led by a friend and collaborator, Carol Sheppard)
www.imperial.ac.uk/jobs/search-...
Description
Please note that job descriptions are not exhaustive, and you may be asked to take on additional duties that align with the key responsibilities ment...
www.imperial.ac.uk
May 22, 2025 at 4:26 PM
Reposted
Come and work with us! Postdoctoral research job to look at methods for working with early pandemic "First Few X" datasets in resource-limited contexts. Please consider applying if of interest and circulate around your networks.

www.jobs.manchester.ac.uk/Job/JobDetai...
Research Associate in Mathematical Epidemiology :Manchester
www.jobs.manchester.ac.uk
May 6, 2025 at 2:45 PM
Reposted
📢 New preprint!

We estimate the serial interval of scabies and characterise its transmission dynamics in the Netherlands over >10 yrs —offering new insights into the spread of a neglected but re-emerging disease. (1/4)

🔗 papers.ssrn.com/sol3/papers....

#IDSky #EpiSky #AcademicSky #NTD
Estimation of the Epidemiological Characteristics of Scabies
Introduction: Scabies is a contagious skin disease caused by the infestation of the skin by the Sarcopes scabiei mite, causing an itchy rash. Scabies affects ov
papers.ssrn.com
April 13, 2025 at 7:10 AM
Reposted
New Preprint! There has been a lot of work on models coupling behaviour with disease dynamics, typically (and understandably) agnostic about the exact behaviour. Here we consider specifically testing and isolation, providing mathematical and numerical analyses.

arxiv.org/abs/2504.02488
A Behaviour and Disease Model of Testing and Isolation
There has been interest in the interactions between infectious disease dynamics and behaviour for most of the history of mathematical epidemiology. This has included consideration of which mathematica...
arxiv.org
April 4, 2025 at 3:18 PM
Reposted
...a “pointless, ill-advised move that will hurt U.S. science and pandemic readiness,” says Charles Rice, a Nobel Prize–winning virologist at Rockefeller University

www.science.org/content/arti...
Saying ‘pandemic is over,’ NIH institute starts cutting COVID-19 research
Grant terminations halt research on improving vaccinations and preventing future pandemics
www.science.org
March 25, 2025 at 9:47 PM
Reposted
The UK has announced a case of avian flu virus #H5N1 detected in a sheep (on a farm with infected birds). I think some of the significance of this (and the wider picture) is being missed in a lot of the reporting. So a short thread...
🧪 #IDsky
www.gov.uk/government/n...
Influenza of avian origin confirmed in a sheep in Yorkshire
Influenza of avian origin (H5N1) has been confirmed in a single sheep in Yorkshire.
www.gov.uk
March 24, 2025 at 12:03 PM
Reposted
Excited to share @joelrc.bsky.social 's new paper examining the factors underlying cell-to-cell heterogeneity in interferon induction during flu infection:

www.biorxiv.org/content/10.1...
Intrinsic OASL expression licenses interferon induction during influenza A virus infection
Effective control of viral infection requires rapid induction of the innate immune response, especially the type I and type III interferon (IFN) systems. Despite the critical role of IFN induction in ...
www.biorxiv.org
March 18, 2025 at 6:47 PM
Reposted
Fully-funded PhD opportunity in mathematical biology and applied mathematics with Pascal Buenzli and me at Queensland University of Technology in Brisbane, Australia. Details at smb.org/Member-Forum... @smbmathbiology.bsky.social
March 18, 2025 at 6:06 AM
Reposted
I wrote and published a review for a new book “A stitch in line: mathematics and one-stitch Sashiko” by Katherine Seaton.

If you’d like to read it, Taylor & Francis gave me 50 free online copies of the article to share with friends and colleagues. Get one here:

www.tandfonline.com/eprint/CUDBX...
A stitch in line: mathematics and one-stitch Sashiko
Published in Journal of Mathematics and the Arts (Ahead of Print, 2025)
www.tandfonline.com
March 2, 2025 at 6:35 PM
We are advertising a PhD position! The project will develop mathematical models for influenza infection within the host, incorporating the effects of antiviral treatment. Domestic and international applicants welcome.
PhD position (Melbourne, Australia)
Mathematical modelling of antivirals against influenza virus infection
with @ada-w-yan.bsky.social @jmccaw.bsky.social
at University of Melbourne
More details: http://iddjobs.org/jobs/2268
February 19, 2025 at 10:06 PM
Reposted
Excited to announce that registration for UK Maths Bio 2025 is open. We have an exciting list of confirmed speakers and are looking for more exciting talks and posters from the community. Please submit your abstract by 31 March 25.

ukmathbioconference.github.io
UK Mathematical Biology Conference
ukmathbioconference.github.io
February 19, 2025 at 3:54 PM
Reposted
Just out: PhD opportunity with Dr Marie Di Placido, Dr Stephen Dunham, Prof Munir Iqbal, Prof. Janet Daley and myself looking at how different livestock species make antibody responses to H5N1.

www.findaphd.com/phds/project...
Deepening our understanding of cross-species antibody responses to H5Nx influenza viruses at The Pirbright Institute on FindAPhD.com
PhD Project - Deepening our understanding of cross-species antibody responses to H5Nx influenza viruses at The Pirbright Institute, listed on FindAPhD.com
www.findaphd.com
February 6, 2025 at 2:42 PM
Reposted
[Please share] We're hiring a postdoc in Mathematical Biology at The University of Melbourne! Come and work with us on a collaborative project looking at how to predict biological behaviour across multiple scales. Feel free to reach out, details are here: jobs.unimelb.edu.au/en/job/91913...
Details : Research Fellow in Multiscale Mathematical Modelling of Cell Biology : The University of Melbourne
Careers at The University of Melbourne
jobs.unimelb.edu.au
January 24, 2025 at 4:17 AM
Reposted
A huge thank you to Nefel Tellioglu, Jessica Stockdale, Julie Spencer, Wasiur Rahman Khuda Bukhsh, @joelcmiller.bsky.social and Cameron Zachreson for including me on this @matrix-inst.bsky.social project we just preprinted results from

t.co/9ioaiNWMQa 🤓
https://doi.org/10.48550/arXiv.2502.00071
t.co
February 6, 2025 at 5:57 PM
Reposted
Amazing opportunity: a few PhD positions in Health Analytics, Epidemic Modelling and Health Economics available with myself and colleagues from @mrc-outbreak.bsky.social, @ccmid.bsky.social and @ukhsa.bsky.social. Please apply/circulate widely!
January 29, 2025 at 1:39 PM
Reposted
The last several years have driven home the feedback between activity & disease transmission. We wanted to know if we could find general rules about how activity might change as vaccination reduces disease burden. We were surprised … follow along 🧵
Existence and stability of equilibria in infectious disease dynamics with behavioral feedback
Mathematical models have provided a general framework for understanding the dynamics and control of infectious disease. Many compartmental models are limited in that they do not account for the range ...
journals.aps.org
January 27, 2025 at 8:50 PM
Reposted
🎺 PhD studentship available at @lshtm.bsky.social and RVC! @influenzal.bsky.social and I are advertising for a project to investigate the unexpected phenomenon that mutagenic antiviral drugs can give rise to viruses with hundreds of mutations which are still viable. 🧵
www.lshtm.ac.uk/study/fees-a...
2025-26 Bloomsbury Colleges PhD Studentships | LSHTM
The Bloomsbury Colleges group was set up in 2004 and consists of five institutions: Birkbeck, London School of Hygiene & Tropical Medicine (LSHTM), the Royal Veterinary College (RVC), the School of Or...
www.lshtm.ac.uk
January 22, 2025 at 12:04 PM
Reposted
Why understanding biology matters in bioinformatics
One big lesson: RNA and protein levels aren’t always correlated. If you don’t know this, you might draw the wrong conclusions. 🧵👇
January 21, 2025 at 2:45 PM