sbfnk.bsky.social
Sebastian Funk
@sbfnk.bsky.social
1.4K followers 990 following 17 posts
Professor of Infectious Disease Dynamics at @lshtm.bsky.social. Developing methods for making sense of outbreak data. Outside of work trying to make sense of the rest of the world.
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Reposted by Sebastian Funk
lshtm.bsky.social
London School of Hygiene & Tropical Medicine @lshtm.bsky.social · Jul 23
👋Don't miss LSHTM research funding opportunities!

We have 2 new PhD #studentships for home fee students as part of @nihr.bsky.social Health Protection Research Units for #Vaccines & Immunisation, & #InfectiousDisease modelling.

Find out more & apply 👇
www.lshtm.ac.uk/study/fees-a...
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Reposted by Sebastian Funk
seabbs.bsky.social
Sam Abbott @seabbs.bsky.social · Jul 15
These should be pretty great I think!

Want some more background on the kind of fun methods these will build off? Open source course here: nfidd.github.io/sismid/
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Reposted by Sebastian Funk
iddjobs.org
IDDjobs @iddjobs.org · Jul 15
2 PhD positions (London, UK)
In real-time infectious disease modelling
with @‪@sbfnk.bsky.social‬ @‪@anne-cori.bsky.social‬ @‪@seabbs.bsky.social‬
at @‪@lshtm.bsky.social‬ @‪@imperialcollegeldn.bsky.social‬ @‪@ukhsa.bsky.social‬
More details: http://iddjobs.org/jobs/2336
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Reposted by Sebastian Funk
anne-cori.bsky.social
Anne Cori @anne-cori.bsky.social · Jul 8
Exciting HPRU PhD opportunities (home fees only) at LSHTM with co-supervision at Imperial and UKHSA: www.lshtm.ac.uk/study/fees-a...
PhD studentships in real-time infectious disease modelling | LSHTM
The London School of Hygiene & Tropical Medicine (LSHTM), Imperial College London and the UK Health Security Agency (UKHSA) are pleased to invite applications for two PhD studentships in real-time
www.lshtm.ac.uk
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Jul 11
So disappointing to still see papers in big publisher journals with data/code links that don't work (e.g. private github repos). If editors and reviewers can't even be bothered to do a minimal check that the linked resource exists, what does that imply for the integrity of the whole review process?
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Sebastian Funk @sbfnk.bsky.social · Jun 12
All I said is that they have health benefits. But I completely agree that there other routes to achieving these (education on safe knife use / assembly from reusable components that could be used for other things) which are preferable. doi.org/10.1016/j.aj...
Redirecting
doi.org
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · May 19
Really enjoyed giving a talk at the @rki.de Colloquium in Berlin today. Slides are at epiforecasts.io/slides/rki_2...
epiforecasts.io
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Reposted by Sebastian Funk
ngozzi.bsky.social
Nicolò Gozzi @ngozzi.bsky.social · Feb 20
Latest out in Epidemics: "Collaborative forecasting of influenza-like illness in Italy: The Influcast experience"

www.sciencedirect.com/science/arti...

👇
Collaborative forecasting of influenza-like illness in Italy: The Influcast experience
Collaborative hubs that integrate multiple teams to generate ensemble projections and forecasts for shared targets are now regarded as state-of-the-ar…
www.sciencedirect.com
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Reposted by Sebastian Funk
seabbs.bsky.social
Sam Abbott @seabbs.bsky.social · Feb 12
The new epidist release just dropped which includes support for the marginal model as well as lots of other goodies

epidist.epinowcast.org/news/index.h...

TLDRP: its 20-lots faster depending on number of stratifications in the data and not approximate.
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Reposted by Sebastian Funk
seabbs.bsky.social
Sam Abbott @seabbs.bsky.social · Feb 14
I was speaking about the epinowcast package, ecosystem, and community with a little bit of a pitch for modelling in Julia at the end.

If any of this work takes your interest this PhD on delay estimation may interest you.

bsky.app/profile/iddj...
iddjobs.org
IDDjobs @iddjobs.org · Feb 14
PhD position (London, UK)
Improving Estimation and Analysis of Epidemiological Delays for Infectious Disease Outbreaks
with @sbfnk.bsky.social @anne-cori.bsky.social @seabbs.bsky.social
at @cmmid-lshtm.bsky.social @lshtm.bsky.social...
More details: http://iddjobs.org/jobs/2261
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Reposted by Sebastian Funk
iddjobs.org
IDDjobs @iddjobs.org · Feb 14
PhD position (London, UK)
Machine Learning for infectious disease forecasting during epidemics and pandemics
with @sbfnk.bsky.social Daniela de Angelis
at @cmmid-lshtm.bsky.social @lshtm.bsky.social @epiforecasts.io
More details: http://iddjobs.org/jobs/2264
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Reposted by Sebastian Funk
iddjobs.org
IDDjobs @iddjobs.org · Feb 14
PhD position (London, UK)
Improving Estimation of Reproduction Numbers in Dynamic Outbreak Contexts
with @anne-cori.bsky.social @sbfnk.bsky.social Edwin van Leeuwen
at @imperial-jameel.bsky.social
More details: http://iddjobs.org/jobs/2263
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Reposted by Sebastian Funk
iddjobs.org
IDDjobs @iddjobs.org · Feb 14
PhD position (London, UK)
Improving Estimation and Analysis of Epidemiological Delays for Infectious Disease Outbreaks
with @sbfnk.bsky.social @anne-cori.bsky.social @seabbs.bsky.social
at @cmmid-lshtm.bsky.social @lshtm.bsky.social...
More details: http://iddjobs.org/jobs/2261
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Reposted by Sebastian Funk
iddjobs.org
IDDjobs @iddjobs.org · Feb 14
PhD position (London, UK)
Improving Infectious Disease Forecasts and Forecast Evaluation
with @sbfnk.bsky.social @anne-cori.bsky.social Edwin van Leeuwen
at @cmmid-lshtm.bsky.social @lshtm.bsky.social @epiforecasts.io
More details: http://iddjobs.org/jobs/2262
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Reposted by Sebastian Funk
matthollanders.bsky.social
Matthijs Hollanders @matthollanders.bsky.social · Feb 4
New blog post! I show how to marginalise discrete variables from Bayesian ecological models in Stan and how to recover their posterior distributions after estimation. I cover occupancy and N-mixture models using multiple parameterisations and model types. quantecol.com.au/blog/margina...
Quantecol - Marginalisation
quantecol.com.au
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
To apply go to www.lshtm.ac.uk/study/fees-a... and in the meantime get in touch with any questions.
PhD Studentships in Health Analytics and Modelling | LSHTM
www.lshtm.ac.uk
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
If generally interested in a PhD in this area have a look at all projects - they're great selection of topics to be taken on by a cohort of students interested in improving pandemic preparedness. The full list is at www.lshtm.ac.uk/media/87071
www.lshtm.ac.uk
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
These are all in collaboration with Imperial @anne-cori.bsky.social and UKHSA so give lots of opportunities for collaboration and applications to case studies of immediate public health relevance.
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
The final project is to improve real-time estimation of reproduction numbers through better understanding of transmission processes and the drivers that shape them. These estimates can directly inform required control efforts but also be used to monitor changes in transmission.
Improving Estimation of Reproduction Numbers in Dynamic Outbreak Contexts
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
Another project aims to improve real-time forecasts of infectious disease outbreaks, involving ensemble methods and a variety of models and testing different data sets that can inform them. Crucially, we need to validate predictions to improve them so evaluation is a big part of this project.
Improving Infectious Disease Forecasts and Forecast Evaluation
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
On project is to improve our ability to characterise things like reporting delays, incubation periods, generation times etc. in real time, i.e. during ongoing outbreaks. These can inform control options such as contact tracing but this requires fully understanding the variation in observed delays.
Improving Estimation and Analysis of Epidemiological Delays for Infectious Disease Outbreaks
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Feb 3
It's rare to have so many PhD studentships open at the same time that are fully funded at the project level - do apply if any of these strike your interest (unfortunately, UK home fee eligible candidates only). I'll describe the 3 projects that involve me / @epiforecasts.io in a bit more detail.
adamjkucharski.bsky.social
Adam Kucharski @adamjkucharski.bsky.social · Jan 29
11 PhD studentships now available in Health Analytics, Epidemic Modelling and Health Economics, jointly between LSHTM, Imperial and UKHSA, to start autumn 2025. Deadline 7 March: www.lshtm.ac.uk/study/fees-a...
PhD Studentships in Health Analytics and Modelling | LSHTM
www.lshtm.ac.uk
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sbfnk.bsky.social
Sebastian Funk @sbfnk.bsky.social · Jan 30
quite.

h/t @hertzpodcast.bsky.social
source doi.org/10.1093/etoj...
Peer review is an essential, uneven, and flawed process at the heart of scientific publishing practices. Whether a study has been published in a journal with reputable peer review practices is often one of the first questions other scientists, journalists, or policy makers have when discussing a new study. However, a few minutes of online searching will turn up countless items on shortcomings in the process, with examples of quackery and outrageous, humorous, fraudulent, or just unreliable research articles that passed review and got published in the scientific literature.
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Reposted by Sebastian Funk
anne-cori.bsky.social
Anne Cori @anne-cori.bsky.social · Jan 29
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!
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Reposted by Sebastian Funk
rozeggo.bsky.social
Dr Roz Eggo @rozeggo.bsky.social · Jan 29
Senior post at LSHTM closes in 2 days (31st Jan). Do apply if you want to lead/join a department focussed on infectious disease epi and dynamics.

Unrelated: the UK doesn’t have executive orders.
rozeggo.bsky.social
Dr Roz Eggo @rozeggo.bsky.social · Jan 7
Open Recruitment of a Full Professor and Head of the Department of Infectious Disease Epidemiology & Dynamics: jobs.lshtm.ac.uk/vacancy.aspx...

Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students.

Join!
Job Opportunity at LSHTM: Professor (and Head of Department)
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
jobs.lshtm.ac.uk
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