Congrats to Vincent Garot for his first PhD #preprint on #machinelearning in #phylodynamics (supported by #dim1health, cosupervised by @alizon @laurentjacob and Anna Zhukova ).

His #TEDDY software package can learn epidemiological parameters, e.g. #R0 or infection duration, directly from multiple sequence alignments of #virus genomic data thanks to simulation-based #inference.

No need to for a #phylogeny, which opens many perspectives for the field!

https://www.biorxiv.org/content/10.64898/2026.01.05.697728v1

@biorxivpreprint

Our team is hiring an #engineer in #bioinformatics / #biostatistics on a 12 months contract to work on #phylodynamics and #deep #learning

This is within the #DEELOGENY project https://deelogeny.pages.in2p3.fr/

Applications should be sent to [email protected]

(additional details in the attached file in French)

#job #Paris @CirbCdf

We have room for contributed talks and (free) registrations for our 2025 #phylodynamics meeting in Paris from Nov. 24 to 26, 2025.

https://phylo2025.sciencesconf.org/

Guest speakers are Emmanuel André (KY Leuwen), Noémie Lefrancq (ETH Zürich), Lu Lu (U of Edinburgh), and Eduardo Mojeno (IFICS).

Registration and abstract submission are now open for the 2025 #phylodynamics conference that will take place in Paris from Nov 24-26.

Confirmed guest speakers are Emmanuel André, Noémie Lefrancq, and Eduardo Moralejo.

https://phylo2025.sciencesconf.org/

This event is co-organised by the @cnrs #PHYLODYN GDR and the @INRAE_DPT_SPE #PhyloMAP network.

#abstract submission is now open for the 32nd International #dynamics & #evolution of human #viruses conference in #Royaumont near #Paris

https://dynamicsevolution.org/event/5/

The main themes will be #genomics, #bioinformatics, #zoonoses, #clusters, #phylodynamics, #phylogeography,
#WithinHost #dynamics, #adaptation,
#vaccines, and #ImmuneEscape

#Phylodynamics of Avian #Influenza A(#H5N1) Viruses from #Outbreaks in #Brazil, Virus Res.: https://pubmed.ncbi.nlm.nih.gov/38880334/

Our study identified strains of the A/H5N1 virus in analyzed samples of subsistence #poultry, wild #birds, and #mammals, belonging to clade 2.3.4.4b,
#genotype #B32, with very high genetic similarity to strains from #Chile, #Uruguay, and #Argentina. This suggests a migratory route for wild birds across the Pacific, explaining the phylogenetic relatedness...

#PSL University is launching a new Advanced Biology Course (#ABC) in #Epidemiology for PhD and MSc students.

The first year will begin on Sept 11, 2024 and focus on #phylodynamics.

More information & registration:
https://www.edu.bio.ens.psl.eu/spip.php?article288

For #MSc and #PhD students interested in #epidemiology, the #ENS #ImaLiS master in #Paris will be organising an Advanced Biology Course next year with a focus on #phylodynamics from Sept to Dec.

Details and registration on the website:

https://www.edu.bio.ens.psl.eu/spip.php?article288

Our #COVID19 #phylodynamics #COVFlow #pipeline to generate #Beast scripts from #GISAID data is now published in @PeerCommunityJournal following recommendation by PCI Genomics.

Thanks to Gonché Danesh for her great work!

https://peercommunityjournal.org/articles/10.24072/pcjournal.333/

We reconstructed the recent transmission history of #YellowFeverVirus in #Brazil. A suitability index was able to capture the seasonality of #zoonotic cases. Spatial modeling revealed hotspots with both past reporting and low #vaccination coverage, coinciding with the largest urban centers in the Southeast. #Phylodynamics identified 3 lineages & provided proof of the directionality of a spatial corridor connecting the endemic North with the extra-Amazonian basin.

https://www.science.org/doi/10.1126/sciadv.adg9204