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Mikaël Salson

@mikael-salson.univ-lille.fr
43 followers 41 following 14 posts

Working on heuristics and data structures for the analysis of genomic data (@bonsaiseqbioinfo.bsky.social, CRIStAL, ULille). Teaching computer science, bioinformatics and scientific methods at ULille. mikael-salson.univ-lille.fr

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Reposted by Mikaël Salson
Roland Faure @rfaure.bsky.social · 09/10/2026
(Thread) New Logan preprint 🥳 www.biorxiv.org/content/10.6...! We sketched all the metagenomes of Logan1.0 and released the sketches. These sketches allow quick content comparison with any/all metagenomes of Logan. Cool applications in the paper and hopefully many others we did not foresee yet 😀
biorxiv.org
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Eric Schares @eschares.bsky.social · 31/08/2026
🚨Update: Our analysis of global APC expenditure has now been expanded to cover more publishers (7 -> 14) and more years (2019-2025). We estimate $15B in APCs paid over seven years, $3.7B in 2025 alone. Elsevier crosses the $1B threshold by itself in 2025. arxiv.org/abs/2608.16322 #ScholComm
Line chart showing 5 biggest publishers from 2019-2025
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Martin Clavey @mart1oeil.eu · 10/09/2026
#Maths, #informatique et #astronomie : le PDG du @cnrs.fr veut chambouler toute l’organisation next.ink/255247/maths... (sur la volonté de Thierry Dauxois de fusionner certains instituts du CNRS)
next.ink
Maths, informatique et astronomie : le PDG du CNRS veut chambouler toute l’organisation
Le nouveau PDG du CNRS, Thierry Dauxois, a affiché clairement sa volonté de réduire le nombre d’instituts dépendant du CNRS. En l’état actuel, le projet…
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Igor Martayan @imartayan.bsky.social · 28/08/2026
Happy to announce that I'll defend my PhD next Friday (Sept 4) at 2pm CEST! There will be a live stream on Zoom, just send me a message if you'd like to join!
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les sans pagEs @lessanspages.bsky.social · 08/07/2026
» Nouvel article: Clémentine Maurice (1990-), chercheuse française en cybersécurité, Lauréate Prix Inria de l'Académie des sciences de la jeune chercheuse fr.wikipedia.org/wiki/Cl%C3%A9menti…
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Julien Gossa @juliengossa.cpesr.fr · 30/05/2026
[ #VeilleESR ] Extrait de la FAQ sur le décret relatif à l'exonération de frais différenciés pour les étudiants étrangers. Si cette politique était légitime, ses défenseurs n'auraient pas besoin de mentir sur sa réalité. Dire que ces frais couvrent "30% du cout réel de la formation" est mentir.
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Tom. @tomrzah.eurosky.social · 19/05/2026
Je viens de finir le classement MonMaster de la formation que je dirige. J'ai eu 475 candidatures, et j'en ai classées 76. Cela m'a pris environ 80h, soit 15 jours de travail à temps plein. Cette procédure doit changer, nous n'avons plus les ressources pour cela.
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David Monniaux @monniauxd.bsky.social · 11/05/2026
rappel: si une personne dans votre famille fait un test ADN, cela vous rend partiellement identifiable par ADN
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Reposted by Mikaël Salson
Igor Martayan @imartayan.bsky.social · 30/03/2026
A quick rant on people vibe-translating our Rust libraries to other languages That's the second time in a week that I see new bioinformatics tools with a vibe-coded translation of our Rust libraries to C/C++. I have two major issues with that:
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Harvard History of Science Department @harvardhistsci.bsky.social · 27/03/2026
Join Us in Two Weeks for The Frederick A. Jakobiec Lecture, featuring Alondra Nelson: "Algorithmic Agnotology: On AI, Knowledge, and Power" – Thursday, April 9 at 4:00pm
April 9, 2026 Frederick A. Jakobiec Lecture poster with lecture details as described above. At the top, It shows an image of anonymous faces, some of them with rectangles over them showing data points/facial recognition; city buildings are shown behind the faces. Includes a head shot of Alondra Nelson below talk's title.
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Mikaël Salson @mikael-salson.univ-lille.fr · 15/12/2025
Il y a 20 ans déjà (!), à la rentrée avait eu lieu une grève de 4 semaines face à l'insuffisance de la dotation accordée par l'État à l'Université : www.lesechos.fr/2005/10/budg... Le problème financier semblait pourtant moins aigu qu'actuellement.
lesechos.fr
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 24/11/2025
#SEQBIM2025 is about to start, Bonsai presents 4 works this year in Nantes seqbim.cnrs.fr/seqbim-2025/...
seqbim.cnrs.fr
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Mikaël Salson @mikael-salson.univ-lille.fr · 17/11/2025
Cohérent avec le ministère qui demande à l'université de réfléchir à un scénario avec -30% d'étudiant⋅es (!) d'ici 5-10 ans.
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Camille Marchet ⚡ @camillemrcht.bsky.social · 01/11/2025
Des ERC mais en deux mois je ne peux pas avoir un badge d'accès pour un chercheur international qui a obtenu une chaire. "C'est compliqué". Quand je vais à Cambridge comme invitée, ils savent que j'arrive et j'ai un badge en une demi seconde. Fin de la blague.
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Mediapart @mediapart.fr · 02/11/2025
À Rouen, une étudiante dénonce une tentative de viol sur le campus et l’attitude de l’université
l.mediapart.fr
À Rouen, une étudiante dénonce une tentative de viol sur le campus et l’attitude de l’université
En novembre 2024, Samia a dénoncé une tentative de viol sur le campus Pasteur de l’université de Rouen-Normandie. Par la suite, un dispositif spécial lui avait permis de poursuivre sa licence chez elle. Mais cette année, l’université a refusé de le reconduire, malgré plusieurs certificats médicaux.
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Rayan Chikhi @rayanchikhi.bsky.social · 03/09/2025
🌎👩‍🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵 Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open. doi.org/10.1101/2024...
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Mikaël Salson @mikael-salson.univ-lille.fr · 04/09/2025
A wonderful day for @bonsaiseqbioinfo.bsky.social, with @camillemrcht.bsky.social's and @npmalfoy.bsky.social's HDR defenses. Congrats for the amazing work! It's a great chance for the team to have you both!
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Mikaël Salson @mikael-salson.univ-lille.fr · 21/07/2025
Oh, she's undoubtedly going to talk about @peercommunityin.bsky.social, right?
Screenshot of an extract of a program in a bioinformatics conference.

Invited Presentation: Choosing journals for submission in popular topics
Confirmed Presenter: Laura ******, Elsevier
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 21/07/2025
And one from @imartayan.bsky.social and @curiouscoding.nl at SEA in Venice on simd computation of minimizers
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 21/07/2025
Two talks for Bonsai this Thursday, one from @mikael-salson.univ-lille.fr during ISMB presenting a compressed representation for viral MSAs,
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Mikaël Salson @mikael-salson.univ-lille.fr · 21/07/2025
There is no such thing as "AI peer review". AI is not a peer. www.nature.com/articles/d41...
nature.com
Scientists hide messages in papers to game AI peer review
Some studies containing instructions in white text or small font — visible only to machines — will be withdrawn from preprint servers.
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 08/07/2025
All Bonsai related communications during #JOBIM2025. Come meet us 👇🏻
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 09/07/2025
Bonsai delegation enjoying #JOBIM2025 🌴and Bordeaux's weather
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Kristoffer Sahlin @ksahlin.bsky.social · 02/07/2025
I worked with Thomas during a three months research visit during his PhD, and it resulted in a paper in NAR. I highly recommend him. doi.org/10.1093/nar/...
doi.org
Improved sub-genomic RNA prediction with the ARTIC protocol
Abstract. Viral subgenomic RNA (sgRNA) plays a major role in SARS-COV2’s replication, pathogenicity, and evolution. Recent sequencing protocols, such as th
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 03/07/2025
Bonsai goes camping by the shore ☀️
Members enter the sea as the sun goes downA picture of the group with pretty dusk colors and the beach in the background Coastal landscape The group with tents
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 18/06/2025
On day 3 our PhD students Mathilde Girard, @bdegardins.bsky.social and Yohan Hernandez Courbevoie will present in the sequence algorithms session
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Ragnar {Groot Koerkamp} @curiouscoding.nl · 19/06/2025
It's hard to overstate how excited I am about suffixient sets and the new path decomposition variant! This preprint is a quick writeup to go with Nicola's CPM talk yesterday. I hope to eventually write a blog about it, but here's some conceptual highlights. 1/
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Camille Marchet ⚡ @camillemrcht.bsky.social · 16/05/2025
😊😊😊 Just grateful because some weeks are very good weeks for the team, and it's been one of them ☺️☺️☺️
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 28/03/2025
Bonsai group members will present 3 talks at @recombseq.bsky.social 2025 in Seoul recomb-seq.github.io/program/ excited to meet you there!
recomb-seq.github.io
Program
RECOMB-seq is the RECOMB Satellite Conference on Biological Sequence Analysis
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Camille Marchet ⚡ @camillemrcht.bsky.social · 28/03/2025
Fully funded positions + included travels between Simon Puglisi's and our group. Dm/email if you have questions.
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 10/02/2025
An example of k-mers data structures in action in a result result: with colleagues from CRCT Toulouse and IRMB Montpellier, we have identified an aberrant splicing mechanism in blood stem cells and certain aggressive forms of acute myeloid leukemia. 1/2
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Bonsai Sequence Bioinformatics @bonsaiseqbioinfo.bsky.social · 10/02/2025
Preprint alert! Can we enumerate how many k-mers lexicographic minimizers have? Yes! (implicitly). Looking forward to applications of this 👌🏻 work by Florian Ingels, @mikael-salson.univ-lille.fr @camillemrcht.bsky.social arxiv.org/abs/2412.17492
arxiv.org
On the number of $k$-mers admitting a given lexicographical minimizer
The minimizer of a word of size $k$ (a $k$-mer) is defined as its smallest substring of size $m$ (with $m\leq k$), according to some ordering on $m$-mers. minimizers have been used in bioinformatics -...
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recombseq.bsky.social @recombseq.bsky.social · 23/01/2025
🚨 Deadline Extended: Call for Papers - RECOMB-seq 2025 🚨 Great news! You now have an extra week to submit your work. 🎉 Updated Deadlines: 🔹 Abstract Registration: Jan 31, 2025 🔹 Submission: Feb 7, 2025 recomb-seq.github.io/papers/
recomb-seq.github.io
Call for Papers
RECOMB-seq is the RECOMB Satellite Conference on Biological Sequence Analysis
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Lucile Veissier @lucileveissier.bsky.social · 12/12/2024
Présente à la convention des labos du CNRS, la seconde après celle de 2019 Antoine Petit annonce un nouveau label pour concentrer les efforts dans 25% des unités : les keylabs La liste des labos est en finalisation, on vous en reparle bientôt dans @themeta.news #VeilleESR
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Camille Marchet ⚡ @camillemrcht.bsky.social · 29/11/2024
In this study, Thomas looked at the behavior of long read mappers on "short" long reads from viral sequences.
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