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Arthur Frouin

@artfr.bsky.social
125 followers 525 following 2 posts

Postdoc in Statistical Genetic Unit at Institut Pasteur. Bacteria enthousiast. Proud dad.

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Reposted by Arthur Frouin
Rita Rebollo @ritarebollo.bsky.social · 31/01/2025
A couple of months ago I tried the @peercommunityin.bsky.social publishing system & I can only recommend it (pun intended). Please see below to change how we publish science 1/n
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Camille Marchet ⚡ @camillemrcht.bsky.social · 09/10/2025
Ca n'est pas si souvent, un article publié dans Nature met ma communauté à l'honneur (la bioinformatique des séquences). Je vous raconte ? www.nature.com/articles/d41...
nature.com
‘Google for DNA’ brings order to biology’s big data
MetaGraph compresses vast data archives into a search engine for scientists, opening up new frontiers of biological discovery.
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Rob Patro @robp.bsky.social · 08/10/2025
And it's posted! If you're interested and eligible, please consider applying through the UMD portal: umd.wd1.myworkdayjobs.com/en-US/UMCP/j.... If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!
umd.wd1.myworkdayjobs.com
Postdoctoral Associate
Job Description Summary Organization's Summary Statement: The postdoctoral research associate is responsible for developing novel computational methodology for high-throughput sequence genomics tasks,...
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David Revoy @davidrevoy.com · 10/09/2025
The Amphora of Great Intelligence (AGI) #webcomic #krita #miniFantasyTheater
A comic strip in four panels:

1. A bird's-eye view of a giant amphora the size of a building with closed eyes and a closed mouth engraved on it. Using scaffolding, a community of wizards climbed up and are throwing all their books into it, to fill its content.
> Wizards: All our grimoires for the Amphora of Great Intelligence!

2. A ground level view at the bottom of the giant amphora. This time, the wizards bring tree trunks, cut down nearby trees, and throw them into a large fire to boil the giant amphora.  
> Wizards: All our forests for the Amphora of Great Intelligence!

3. A gathering of all the wizards below the imposing amphora which has now opened its glowing eyes and mouth slightly. The crowd of wizards at its feet applauds:  
> Wizards: Amphora of Great Intelligence, our world is dying, share your knowledge with us!

4. Same shot, as the amphora responds with joyful and amused eyes. The wizards are confused by the answer...
> Artificial Intelligence: According to geologists, you should eat at least one small rock per day.  
> Wizards: ... ... ...
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ZEVENT @zevent.fr · 08/09/2025
Le montant final officiel de ce #ZEVENT2025 s'élève donc à 16 179 096€ au profit des soignants et des patients. Merci à tous pour votre énergie et votre générosité. 💚
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John Lees @johnlees.bacpop.org · 15/08/2025
My PhD student @leonielorenz.bsky.social (with Eva Geissen) has made this nice (free) online course to introduce mathematical modelling for biology: www.ebi.ac.uk/training/onl... Including both molecular and epidemiological examples
ebi.ac.uk
Mathematical modelling for biologists - Modelling concepts in biological research
Mathematical modelling for biologists - Modelling concepts in biological research
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John Helmann @johnhelmann.bsky.social · 28/07/2025
Metal ions are universally required for life, and many of the foundational principles of metal homeostasis have emerged from studies of microbial systems. In this review, I provide a introductory overview targeted to those new to the field. #MicroSky #Metals rdcu.be/eycU2
rdcu.be
Microbial metal physiology: ions to ecosystems
Nature Reviews Microbiology - Metal ions are required for all cells, and their homeostasis relies on ancient mechanisms that facilitate their import, distribution and storage. In this Review,...
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Framasoft @framasoft.org · 28/07/2025
Avec #Framaspace, vos documents, agendas et contacts peuvent être entièrement synchronisés sur votre ordinateur ou smartphone ! 🔄 ➡️ framaspace.org
Capture d'écran de Framaspace.

On y voit :
- En fond, un document Markdown ouvert
- Au premier plan, le logiciel de synchronisation de Nextcloud, indiquant quels dossiers sont synchronisés sur l'ordinateur et les dernières activités de synchronisation.
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Aude Bernheim @audeber.bsky.social · 24/07/2025
🦠🧍‍♀️From bacterial to human immunity. We report in @science.org the discovery of a human homolog of SIR2 antiphage proteins that participates in the TLR pathway of animal innate immunity. Co-led wt @enzopoirier.bsky.social by D. Bonhomme and @hugovaysset.bsky.social www.science.org/doi/10.1126/...
science.org
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IDDjobs @iddjobs.org · 25/07/2025
Postdoc (London, UK) Research scientist to lead virus evolution and bioinformatic data analysis for wastewater surveillance of pandemic pathogens. at Imperial College London More details: iddjobs.org/jobs/2341
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Dr Emma Hodcroft @firefoxx66.bsky.social · 25/07/2025
My biggest, loudest job application advice: WHY do you want this job? This SPECIFIC job? What about it interests you? What do you think of it? What can you bring to it? I know this sounds obvious but a generic cover letter isn't doing you favours - really. *Show me you know the job!* 1/7
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Rob Edwards @linsalrob.bsky.social · 25/07/2025
🌟 Exciting news! We’re launching three fully-funded postdoc positions for "New Horizons for Synthetic Phages” Join us in tackling antimicrobial resistance with cutting-edge synthetic biology + AI bioinformatics. Based at Flinders Uni in vibrant Adelaide. 👇 Read on for details! #Phage
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Arthur Frouin @artfr.bsky.social · 23/07/2025
Looks very cool ! Just a quick comment: the legend of figure S3 is very hard to read for color blind ppl, in particular the first and last item.
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Lilly Cummins @lillycummins.bsky.social · 23/07/2025
🚨New pre-print 🚨 We introduce our new tool GOLD-GWAS and demonstrate its use by digging into the evolution of MRSA facilitated by SCCmec This work was led by talented PhD student @seungwonko.bsky.social who did most of the computational heavylifting 1/n www.biorxiv.org/content/10.1...
biorxiv.org
Genome co-adaptation and the evolution of methicillin resistant Staphylococcus aureus (MRSA)
Background: Antimicrobial resistance (AMR) in bacterial pathogens is a major threat to global health, rendering standard treatments ineffective and increasing the risk of severe infection or death. Re...
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Asaf Levy @asaflevylab.bsky.social · 23/07/2025
Scientists and engineers could: Sequence the human genome Put a man on the moon Invent the internet Solve protein folding problem Decipher the complex immune system. But fail to design a poster session in which you can actually hear the presenter. In nearly every meeting out there.
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Nandita Garud @nanditagarud.bsky.social · 22/07/2025
I am seeking a postdoc for my group at UCLA. We work at the intersection of population genetics x microbiome (garud.eeb.ucla.edu). If interested, please message me!
garud.eeb.ucla.edu
Garud Lab
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We Are RLadies+ @weare.rladies.org · 18/07/2025
🧵 Do you have R packages that make your workflow smoother or help you avoid problems you used to face all the time? I’ve collected a few that solved issues that used to trip me up 👇
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Andrew Singer @oxonandrew.bsky.social · 05/02/2025
The overview of AMR that you always wanted (someone else to write) - amazing! Truly brilliant paper with great figures! @lancetmicrobe.bsky.social www.thelancet.com/journals/lan...
thelancet.com
Antimicrobial resistance: a concise update
Antimicrobial resistance (AMR) is a serious threat to global public health, with approximately 5 million deaths associated with bacterial AMR in 2019. Tackling AMR requires a multifaceted and cohesive...
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Sébastien Fontenelle @vivelefeu.bsky.social · 20/07/2025
Les signataires de la pétition contre la loi Dupont seront bientôt plus nombreux que les électeurs et électrices du parti de François Bayrou.
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Lisa Maier Lab | Tübingen @lisamaierlab.bsky.social · 16/07/2025
Finally online! Our latest research is out @nature.com: We show that non-antibiotic drugs can disrupt colonization resistance, raising the risk of enteric infections. rdcu.be/ewwrG
rdcu.be
Non-antibiotics disrupt colonization resistance against enteropathogens
Nature - Non-antibiotic drugs from a wide range of therapeutic classes can alter the ability of gut commensals to resist invasion by enteropathogens, a previously underappreciated side effect of...
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Abid Hussain @amh10.bsky.social · 15/07/2025
The international and intercontinental spread and expansion of antimicrobial-resistant Salmonella Typhi: a genomic epidemiology study - The Lancet Microbe www.thelancet.com/journals/lan...
thelancet.com
The international and intercontinental spread and expansion of antimicrobial-resistant Salmonella Typhi: a genomic epidemiology study
Independent acquisition of plasmids and homoplastic mutations conferring antimicrobial resistance have occurred repeatedly in multiple lineages of S Typhi, predominantly arising in south Asia before s...
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Tami Lieberman @contaminatedsci.bsky.social · 29/06/2025
Any favorite papers using or review papers on applying modern machine learning methods to human GWAS?
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Matthew Hahn @3rdreviewer.bsky.social · 28/06/2025
Cool new paper on pop gen and machine learning: www.biorxiv.org/content/10.1...
biorxiv.org
Coalescence and Translation: A Language Model for Population Genetics
Probabilistic models such as the sequentially Markovian coalescent (SMC) have long provided a powerful framework for population genetic inference, enabling reconstruction of demographic history and an...
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Rafal Mostowy @rafalmostowy.bsky.social · 26/06/2025
What determines who a phage can infect? We tackled this question for temperate phages of Klebsiella — a bacterial pathogen — using a genome-wide association study (GWAS) and a massive protein testing effort. 👇 A thread!
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Philip Fowler @philipwfowler.bsky.social · 25/06/2025
Come and work with me and use the 53,897 samples of M. tuberculosis we have collated to help tackle this important disease! We are part of the OxCoD4TB consortium that is developing new therapeutics for tuberculosis. Grade 7, funding until 28 Feb 2028, deadline noon Fri 4 July bit.ly/4ndKOhF
bit.ly
Job Details
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bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 24/06/2025
PanVA: a visual analytics tool for pangenomic variant analysis www.biorxiv.org/content/10.1101/202…
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Pamela Ferretti @pamferretti.bsky.social · 04/06/2025
Interested in microbiome GWAS and heritability studies? Check out our new Review in Nature Reviews Genetics! We explore key findings, challenges, and future directions of the field. rdcu.be/epoRR @blekhman.bsky.social @sambhawa.bsky.social and Dr. Kelsey Johnson.
rdcu.be
Genomics of host–microbiome interactions in humans
Nature Reviews Genetics - In this Review, Ferretti et al. discuss advances in our understanding of interactions between the human genome and the microbiome, including the effects of the microbiome...
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Quadram Institute @quadraminstitute.bsky.social · 24/06/2025
Do you have an interest in soil microbiology and biogeochemical cycling, and statistics/programming skills (either R, python, Perl, C++, or equivalent)? Check our current vacancy ⤵️ 💷 £36,720 to £42,000 per annum 🗓️ Apply by 08 July 2025 ➡️https://buff.ly/BSB0Qfh
Social card for vacancy which reads "Research Scientist. Develop pipelines for metagenomic and amplicon sequencing data to understand the role of prokaryotes in mitigating greenhouse gas emissions. Salary: £36,720 to £42,000. Contract length: 9 months. Apply by 8 July 2025".
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Eric Topol @erictopol.bsky.social · 23/06/2025
This is wild! Engineering E. coli bacteria to turn plastic waste into paracetamol (Tylenol) www.nature.com/articles/s41... www.nature.com/articles/s41...
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Modernising Medical Microbiology @modmedmicro.bsky.social · 23/06/2025
Just like buses, here is a third role we are advertising for! Come and help @philipwfowler.bsky.social use the large TB datasets we hold to help the OxCoD4TB consortium develop new therapeutics for tuberculosis. Grade 7, funding until 28 Feb 2028, deadline noon Fri 4 July bit.ly/4ndKOhF
bit.ly
Job Details
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Jonathan Jacobs @bioinformer.bsky.social · 19/06/2025
Need bacterial DNA methylation data? Well, we’ve been re-basecalling all ONT data for the ATCC Genome Portal to get it. A huge effort, but as of today we have Mthyl data for ~1,500 bacterial strains. Attending #ASMicrobe? happy to chat IRL about it too. i.e. > genomes.atcc.org/genomes/67e8...
genomes.atcc.org
ATCC® 9945a™ | Bacillus paralicheniformis | ATCC Genome Portal
Bacillus paralicheniformis is a strain of bacteria in the Bacillus genus. This genome was published to the ATCC Genome Portal on 2022-04-02
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Stephan Lewandowsky @lewan.uk · 19/06/2025
I am privileged to announce the publication of the Anti-Autocracy Handbook: sks.to/autocracy 1/12
sks.to
The Anti-Autocracy Handbook: A Scholars' Guide to Navigating Democratic Backsliding
The Anti-Autocracy Handbook is a call to action, resilience, and collective defence of democracy, truth, and academic freedom in the face of mounting authoritarianism. It tries to provide guidance to ...
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Madhu Pai, MD, PhD @madhupai.bsky.social · 19/06/2025
Autocracies often follow a common playbook, built around the “3 Ps”: populism, polarization, and post-truth This handbook highlights both historic and contemporary measures aimed at attacking scholars, their institutional environments, and their scholarship zenodo.org/records/1569...
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Modernising Medical Microbiology @modmedmicro.bsky.social · 19/06/2025
Come and help us develop and validate genetic pipelines for processing pathogens in collaboration with @eitoxford.bsky.social Senior Bioinformatic Engineer bit.ly/4ecl0hF Senior Biostatistical Researcher bit.ly/4kRfZxI Grade 8 or 7, depending on experience closing date: noon Wednesday 2 July
bit.ly
Job Details
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Thom Volker @thomvolker.bsky.social · 18/06/2025
After two weeks, I'm finally done! In this post, I explain different approaches for solving linear regression in R: directly, using QR, singular value and Cholesky decompositions, and do some benchmarking for comparison with in-built approaches. thomvolker.github.io/blog/2506_re...
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IDDjobs @iddjobs.org · 18/06/2025
Postdoc (Paris, France) Modelling the spread of antimicrobial-resistant bacteria over healthcare networks with Laura Temime at @mesurs-cnam More details: iddjobs.org/jobs/2323
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Nature Portfolio @natureportfolio.nature.com · 17/06/2025
A study in Nature Genetics establishes the comprehensive genome-wide map of Shigella genes required to infect human intestinal epithelium. go.nature.com/4e7fdKp 🧬 🧪
This is figure 2, which shows a genome-wide map of the Shigella geneset required to invade the human enteroid infection model.
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David Bikard @dbikard.bsky.social · 17/06/2025
Le Palais de la Découverte est menacé! Il a contribué à éveiller ma passion pour la science quand j'étais petit. Nous devons tout faire pour protéger ce lieu unique qui a toute sa place au cœur de Paris. Signez la pétition ici: chng.it/BnR9gZvhL2
chng.it
Signez la pétition
Sauvons le Palais de la découverte
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Agence France-Presse @afp.com · 17/06/2025
L'ex-Premier ministre François Fillon a été condamné par la cour d'appel à 4 ans de prison avec sursis, 375.000 euros d'amende et 5 ans d'inéligibilité, plus de huit ans après les révélations sur les emplois fictifs de son épouse Penelope.
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Centre for Genomic Pathogen Surveillance @thecgps.bsky.social · 12/06/2025
We’re pleased to share two new preprints with results from a structured survey of carbapenem- and/or colistin-resistant Enterobacterales (CCRE), conducted in 37 European countries in 2019. E. coli: papers.ssrn.com/sol3/papers.... K. pneumoniae: papers.ssrn.com/sol3/papers....
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Clémence Guetté @clemenceguette.bsky.social · 11/06/2025
Rima Hassan a été placée à l'isolement, dans une cellule insalubre. Elle entame une grève de la faim. Toutes mes pensées vont vers ma collègue emprisonnée, ainsi qu'à ses camarades de la #FreedomFlotilla. Rdv à République à 19H.
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A. Murat Eren (Meren) @merenbey.bsky.social · 05/06/2025
We have a new 3-year postdoc position in our group at the @hifmb.de to study plasmids and plasmids systems of the marine environment to survey their utility in microbial responses to environmental change. Please see the official job ad here, and spread the word: jobs.awi.de/Vacancies/20...
jobs.awi.de
PostDoc in ecology and evolution of plasmids in polar waters at HIFMB (f/d/m)
Layout AWI HIPP extern, englisch
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Mike Inouye @mikeinouye.bsky.social · 05/06/2025
📣 Latest from the lab: Performance of deep-learning-based approaches to improve polygenic scores www.nature.com/articles/s41... Its thought deep learning will substantially improve PGS but the reality is MANY have tried but no/little gain has been seen so far. Here we report our negative results.
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Stephen Turner @stephenturner.us · 04/06/2025
BakRep – a searchable large-scale web repository for bacterial genomes, characterizations and metadata www.microbiologyresearch.org/content/jour... 🧬🖥️ Nextflow code: github.com/ag-computati...
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Rayan Chikhi @rayanchikhi.bsky.social · 03/06/2025
Slides from my talk (with @kamilsjaron.bsky.social) on an history of k-mers in bioinformatics: rayan.chikhi.name/pdf/2025-kme...
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Jonathan Pritchard @jkpritch.bsky.social · 01/06/2025
I have an opportunity to hire a staff scientist for my lab. Looking for someone with outstanding skillset in ML/statistics, genomics applications; interest in mentoring, strong publication record, PD experience required. Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.
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Buck Samuel 🪱🦠🧬🔬 @microbeminded.bsky.social · 31/05/2025
Opening for a #postdoc in the lab available immediately. Please spread the word. DETAILS HERE: jobrxiv.org/job/baylor-c... cc: #academicJobs #postdocJobs #microbiome #Celegans #organoids #IBD #PathSky #Medsky #AcademicSky 🧪 🧬 🦠
jobrxiv.org
Postdoctoral Associate in IBD genetics in C. elegans and organoids
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
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Dialectik Football @dialectik-football.info · 31/05/2025
🔴 Pas vu à la télé: lors de la finale de #ChampionsLeague, les ultras du PSG ont déployé une banderole dénonçant le génocide en cours à #Gaza 🇵🇸. ... #GazaGenocide #UCLfinal #PsgInter #PSGINT (📷 @leylahamed.bsky.social )
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Alex Crits-Christoph @acritschristoph.bsky.social · 30/05/2025
Promising toolkit for binning and visualizing assembly graphs. The assembly graph is an underutilized source of binning information IMO gbintk.readthedocs.io/en/latest/
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