Marten Chaillet
@martenchaillet.bsky.social
CryoET open-source software developer 🤓 Postdoc to tackle tilt-series alignment with deep-learning. Working at the Hubrecht Instute, with funding from Genentech.
interests outside of work: DnD, cooking, cyling!
interests outside of work: DnD, cooking, cyling!
Pinned
pytom-match-pick: A tophat-transform constraint for automated classification in template matching pubmed.ncbi.nlm.nih.gov/40475324/ #cryoem
Final PhD paper now reviewed and published in JSB:X. I was happy with some great reviews that improved the paper! Thanks to Sander Roet for his help with the code base, and Remco Veltkamp and @fridof.bsky.social
Reposted by Marten Chaillet
2026 will bring great tilt series alignments for the ribosome-deficient among us 🎆
January 1, 2026 at 12:01 AM
2026 will bring great tilt series alignments for the ribosome-deficient among us 🎆
Reposted by Marten Chaillet
CryoEM folks, If you want to handle huge STAR file efficiently in Python, please try starfile-rs!
github.com/hanjinliu/star…
Reading a motion data of a particle from a 15 MB file is just like this ↓🤩
github.com/hanjinliu/star…
Reading a motion data of a particle from a 15 MB file is just like this ↓🤩
December 23, 2025 at 2:52 PM
CryoEM folks, If you want to handle huge STAR file efficiently in Python, please try starfile-rs!
github.com/hanjinliu/star…
Reading a motion data of a particle from a 15 MB file is just like this ↓🤩
github.com/hanjinliu/star…
Reading a motion data of a particle from a 15 MB file is just like this ↓🤩
Reposted by Marten Chaillet
It would be a great start if the individual methods papers could quantify the quality of their own results instead of relying on visual vibes
December 13, 2025 at 5:15 PM
It would be a great start if the individual methods papers could quantify the quality of their own results instead of relying on visual vibes
Reposted by Marten Chaillet
Reposted by Marten Chaillet
More steps towards a saner model of academic publishing and evaluation:
1. We should all roll with initiatives such as the one linked in the previous post: submit our papers only to society journals and accept to review only for society journals. And preprint everything, of course.
2. We […]
1. We should all roll with initiatives such as the one linked in the previous post: submit our papers only to society journals and accept to review only for society journals. And preprint everything, of course.
2. We […]
Original post on fediscience.org
fediscience.org
December 5, 2025 at 7:39 AM
More steps towards a saner model of academic publishing and evaluation:
1. We should all roll with initiatives such as the one linked in the previous post: submit our papers only to society journals and accept to review only for society journals. And preprint everything, of course.
2. We […]
1. We should all roll with initiatives such as the one linked in the previous post: submit our papers only to society journals and accept to review only for society journals. And preprint everything, of course.
2. We […]
If you haven't tried, Advent of Code is a very fun challenge! Hope I will have some time to follow along this year
If you'd like any programming practice, I have ten years (soon: 11) of programming puzzles on adventofcode.com!
All of the puzzles are completely free! This is possible in part due to some lovely sponsors who you should definitely check out: adventofcode.com/2025/sponsors
All of the puzzles are completely free! This is possible in part due to some lovely sponsors who you should definitely check out: adventofcode.com/2025/sponsors
November 28, 2025 at 3:57 PM
If you haven't tried, Advent of Code is a very fun challenge! Hope I will have some time to follow along this year
Good podcast!
It would have been nice to hear more debate between the philosopher (Alex) and the scientists, because they were having two different conversations at some points. Alex raised good points about the difference between measuring correlation with consciousness and actual consciousness
It would have been nice to hear more debate between the philosopher (Alex) and the scientists, because they were having two different conversations at some points. Alex raised good points about the difference between measuring correlation with consciousness and actual consciousness
What can science tell us about consciousness?
Join our expert panellists as they answer audience questions about the nature of consciousness.
Listen now on your favourite podcast platform:
lnk.to/AQOSConsciou...
Join our expert panellists as they answer audience questions about the nature of consciousness.
Listen now on your favourite podcast platform:
lnk.to/AQOSConsciou...
November 28, 2025 at 11:23 AM
Good podcast!
It would have been nice to hear more debate between the philosopher (Alex) and the scientists, because they were having two different conversations at some points. Alex raised good points about the difference between measuring correlation with consciousness and actual consciousness
It would have been nice to hear more debate between the philosopher (Alex) and the scientists, because they were having two different conversations at some points. Alex raised good points about the difference between measuring correlation with consciousness and actual consciousness
Reposted by Marten Chaillet
Incredible #AdventOfCode music video: www.youtube.com/watch?v=zF_4...
[MV] 10 Years of AoC
YouTube video by M1n3c4rt
www.youtube.com
November 23, 2025 at 10:55 PM
Incredible #AdventOfCode music video: www.youtube.com/watch?v=zF_4...
Reposted by Marten Chaillet
🧠 The Lipid #Brain Atlas is out now! If you think #lipids are boring and membranes are all the same, prepare to be surprised. Led by @lucafusarbassini.bsky.social with Giovanni D'Angelo's lab, we mapped membrane lipids in the mouse brain at high resolution.
www.biorxiv.org/cgi/content/...
www.biorxiv.org/cgi/content/...
October 16, 2025 at 6:23 AM
🧠 The Lipid #Brain Atlas is out now! If you think #lipids are boring and membranes are all the same, prepare to be surprised. Led by @lucafusarbassini.bsky.social with Giovanni D'Angelo's lab, we mapped membrane lipids in the mouse brain at high resolution.
www.biorxiv.org/cgi/content/...
www.biorxiv.org/cgi/content/...
Reposted by Marten Chaillet
Anti-fascistic software is made possible by pro-labor licensing.
I've been trying to write this piece for years. Every time I get started I'm just overwhelmed with paralyzing visions of the FOSS commentariat accusing me of WrongThink.
But I'm tired and we urgently need to get our shit together.
I've been trying to write this piece for years. Every time I get started I'm just overwhelmed with paralyzing visions of the FOSS commentariat accusing me of WrongThink.
But I'm tired and we urgently need to get our shit together.
Open Source Power
We have to talk about open source licensing.
blog.muni.town
November 14, 2025 at 4:22 PM
Anti-fascistic software is made possible by pro-labor licensing.
I've been trying to write this piece for years. Every time I get started I'm just overwhelmed with paralyzing visions of the FOSS commentariat accusing me of WrongThink.
But I'm tired and we urgently need to get our shit together.
I've been trying to write this piece for years. Every time I get started I'm just overwhelmed with paralyzing visions of the FOSS commentariat accusing me of WrongThink.
But I'm tired and we urgently need to get our shit together.
Reposted by Marten Chaillet
Door de sterke opwarming van de Zuidelijke Oceaan smelten gletsjers aan de rand van het Antarctische continent aan de onderkant snel weg. Hierdoor worden de landinwaarts gelegen ijsmassa’s instabiel, en storten uiteindelijk in.
De onvermijdelijkheid van zeespiegelstijging
Door de sterke opwarming van de Zuidelijke Oceaan smelten gletsjers aan de rand van het Antarctische continent aan de onderkant snel weg. Hierdoor worden de landinwaarts gelegen ijsmassa’s instabiel,
www.knmi.nl
November 5, 2025 at 10:50 AM
Door de sterke opwarming van de Zuidelijke Oceaan smelten gletsjers aan de rand van het Antarctische continent aan de onderkant snel weg. Hierdoor worden de landinwaarts gelegen ijsmassa’s instabiel, en storten uiteindelijk in.
Reposted by Marten Chaillet
Thrilled, and admittedly relieved, to see this major investment in Dutch #cryoEM become reality! 🇳🇱🔬
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
33 million euro investment for national electron microscope facility EMPower
A major new national facility for electron microscopy, called EMPower, has been awarded to a consortium of Dutch universities and medical centers. EMPower aims to pave the way for major discoveries im...
www.uu.nl
November 3, 2025 at 4:47 PM
Thrilled, and admittedly relieved, to see this major investment in Dutch #cryoEM become reality! 🇳🇱🔬
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Congrats to the applicants! Great news for EM in the Netherlands
Very happy that NWO supports this major upgrade of our national EM infrastructure. It is great that this initiative got broad support all over NL, and it will EMPower fantastic science - looking forward to that!
www.uu.nl/en/news/33-m...
www.uu.nl/en/news/33-m...
33 million euro investment for national electron microscope facility EMPower
A major new national facility for electron microscopy, called EMPower, has been awarded to a consortium of Dutch universities and medical centers. EMPower aims to pave the way for major discoveries im...
www.uu.nl
November 4, 2025 at 12:19 PM
Congrats to the applicants! Great news for EM in the Netherlands
Reposted by Marten Chaillet
CryoJAX - A Cryo-Electron Microscopy Image Simulation Library in JAX www.biorxiv.org/content/10.1101/2025.10.23.682564v1 #cryoem
October 25, 2025 at 11:29 AM
CryoJAX - A Cryo-Electron Microscopy Image Simulation Library in JAX www.biorxiv.org/content/10.1101/2025.10.23.682564v1 #cryoem
Reposted by Marten Chaillet
Reposted by Marten Chaillet
Op sociale media delen PVV-fanaccounts levensechte AI-beelden, veelal van knappe, blonde vrouwen die worden bedreigd door migranten. Deze pagina’s blijken te worden beheerd door minstens twee PVV-Kamerleden.
👉 buff.ly/MFNFcU3
👉 buff.ly/MFNFcU3
October 11, 2025 at 5:10 AM
Op sociale media delen PVV-fanaccounts levensechte AI-beelden, veelal van knappe, blonde vrouwen die worden bedreigd door migranten. Deze pagina’s blijken te worden beheerd door minstens twee PVV-Kamerleden.
👉 buff.ly/MFNFcU3
👉 buff.ly/MFNFcU3
Reposted by Marten Chaillet
Very excited that my final postdoctoral work is now online in Cell @cellpress.bsky.social.
www.sciencedirect.com/science/arti...
Using 16 (!) cryo-EM structures, we uncovered how the three proteins coronin, cofilin and AIP1 work together to rapidly disassemble actin filaments.
www.sciencedirect.com/science/arti...
Using 16 (!) cryo-EM structures, we uncovered how the three proteins coronin, cofilin and AIP1 work together to rapidly disassemble actin filaments.
October 13, 2025 at 9:04 AM
Very excited that my final postdoctoral work is now online in Cell @cellpress.bsky.social.
www.sciencedirect.com/science/arti...
Using 16 (!) cryo-EM structures, we uncovered how the three proteins coronin, cofilin and AIP1 work together to rapidly disassemble actin filaments.
www.sciencedirect.com/science/arti...
Using 16 (!) cryo-EM structures, we uncovered how the three proteins coronin, cofilin and AIP1 work together to rapidly disassemble actin filaments.
Reposted by Marten Chaillet
Muyuan Chen has turned structural biology into an immersive experience with his new video game Meowtabolism, now available on Steam.
Try the demo here: store.steampowered.com/app/4045010/...
Give Muyuan feedback: steamcommunity.com/app/4045010
#ScienceGaming #StructuralBiology #CryoEM #STEMOutreach
Try the demo here: store.steampowered.com/app/4045010/...
Give Muyuan feedback: steamcommunity.com/app/4045010
#ScienceGaming #StructuralBiology #CryoEM #STEMOutreach
October 4, 2025 at 1:34 PM
Muyuan Chen has turned structural biology into an immersive experience with his new video game Meowtabolism, now available on Steam.
Try the demo here: store.steampowered.com/app/4045010/...
Give Muyuan feedback: steamcommunity.com/app/4045010
#ScienceGaming #StructuralBiology #CryoEM #STEMOutreach
Try the demo here: store.steampowered.com/app/4045010/...
Give Muyuan feedback: steamcommunity.com/app/4045010
#ScienceGaming #StructuralBiology #CryoEM #STEMOutreach
Reposted by Marten Chaillet
But there’s a curious loose end to this story. Scientists have been looking at PSII organization in thylakoids for over 50 years (including some really stunning freeze fracture 🔬😍). Sometimes PSII looks randomly oriented, and other times it forms extended 2D crystalline arrays in the membrane 💠
9/🧵
9/🧵
September 25, 2025 at 6:34 PM
But there’s a curious loose end to this story. Scientists have been looking at PSII organization in thylakoids for over 50 years (including some really stunning freeze fracture 🔬😍). Sometimes PSII looks randomly oriented, and other times it forms extended 2D crystalline arrays in the membrane 💠
9/🧵
9/🧵
👀 this is really interesting!
Dose-efficient cryo-electron microscopy for thick samples using tilt- corrected scanning transmission electron microscopy pubmed.ncbi.nlm.nih.gov/40987871/ #cryoem
September 24, 2025 at 1:38 PM
👀 this is really interesting!
Reposted by Marten Chaillet
PSA: 9 billion USD in research funds stolen by publishers over a 5 year period for open access fees - this takes away from your ability to pay your people what they are worth. Preprints forever.
September 21, 2025 at 8:02 PM
PSA: 9 billion USD in research funds stolen by publishers over a 5 year period for open access fees - this takes away from your ability to pay your people what they are worth. Preprints forever.
This is the research we need 😋 I have been struggling for years to make reliable cacio e pepe, can't wait to try it out
ista.ac.at/en/news/2025...
ista.ac.at/en/news/2025...
2025 Ig Nobel Prize for Perfect Pasta Sauce
The Ig Nobel Prize honors research that first makes people laugh, then makes them think. Its 35th award ceremony possibly also makes people hungry: ISTA physicist Fabrizio Olmeda and colleagues resear...
ista.ac.at
September 20, 2025 at 11:10 AM
This is the research we need 😋 I have been struggling for years to make reliable cacio e pepe, can't wait to try it out
ista.ac.at/en/news/2025...
ista.ac.at/en/news/2025...
Reposted by Marten Chaillet
Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching https://www.biorxiv.org/content/10.1101/2025.09.11.675606v1
September 17, 2025 at 3:49 AM
Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching https://www.biorxiv.org/content/10.1101/2025.09.11.675606v1
Reposted by Marten Chaillet
Together with colleagues at the Dept. of Microsystems Engineering, we are looking for a PhD student to develop methods for femtoliter-scale sample dispensing in cryoEM sample preparation.
edu.nl/h436k
If you like interdisciplinary research & fascinating physics at ultrasmall scales, please apply!
edu.nl/h436k
If you like interdisciplinary research & fascinating physics at ultrasmall scales, please apply!
September 8, 2025 at 1:48 PM
Together with colleagues at the Dept. of Microsystems Engineering, we are looking for a PhD student to develop methods for femtoliter-scale sample dispensing in cryoEM sample preparation.
edu.nl/h436k
If you like interdisciplinary research & fascinating physics at ultrasmall scales, please apply!
edu.nl/h436k
If you like interdisciplinary research & fascinating physics at ultrasmall scales, please apply!