Stephen Methot
@smethot.bsky.social
SNF Ambizione Fellow at the FMI in Basel, Switzerland. Studying how dynamic chromatin regulates development. https://methstep.github.io/
Reposted by Stephen Methot
The IGBMC is recruiting a new Computational Biology Group Leader through the ENACT AI Chair for Scientific Discoveries, covering cancer, developmental, and structural biology. Join one of Europe’s leading life science centers!
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
November 13, 2025 at 9:33 AM
The IGBMC is recruiting a new Computational Biology Group Leader through the ENACT AI Chair for Scientific Discoveries, covering cancer, developmental, and structural biology. Join one of Europe’s leading life science centers!
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
Reposted by Stephen Methot
Jo in our team - we are looking for a PhD student, postdoc or lab manager!
More information and links to job portal for application submission:
lnkd.in/dcU2Vg7W
lnkd.in/dgVKTARV
Please share widely 🙏🏼
@yefis-immunology.bsky.social @syis-ecr.bsky.social
More information and links to job portal for application submission:
lnkd.in/dcU2Vg7W
lnkd.in/dgVKTARV
Please share widely 🙏🏼
@yefis-immunology.bsky.social @syis-ecr.bsky.social
Postdoc or PhD student position in molecular dissection of cellular crosstalk in the intestinal mucosa
lnkd.in
November 11, 2025 at 6:20 AM
Jo in our team - we are looking for a PhD student, postdoc or lab manager!
More information and links to job portal for application submission:
lnkd.in/dcU2Vg7W
lnkd.in/dgVKTARV
Please share widely 🙏🏼
@yefis-immunology.bsky.social @syis-ecr.bsky.social
More information and links to job portal for application submission:
lnkd.in/dcU2Vg7W
lnkd.in/dgVKTARV
Please share widely 🙏🏼
@yefis-immunology.bsky.social @syis-ecr.bsky.social
Reposted by Stephen Methot
Three FMI researchers—Nanci Winke, @neuramos.bsky.social & @lukas-anneser.bsky.social—have received @snsf.ch Ambizione Grants! Their projects explore how emotions shape behavior, how the brain responds to anxiety treatments, and how brain states affect learning & memory 🧠 www.fmi.ch/news-events/...
Three FMI researchers awarded coveted SNSF Ambizione Grants
Three FMI researchers — Nanci Winke, Arnau Ramos Prats, and Lukas Anneser — have been awarded a prestigious Ambizione Grant from the Swiss National Science Foundation (SNSF). Their work spans from unc...
www.fmi.ch
October 29, 2025 at 9:06 AM
Three FMI researchers—Nanci Winke, @neuramos.bsky.social & @lukas-anneser.bsky.social—have received @snsf.ch Ambizione Grants! Their projects explore how emotions shape behavior, how the brain responds to anxiety treatments, and how brain states affect learning & memory 🧠 www.fmi.ch/news-events/...
Reposted by Stephen Methot
And the next one: dx.doi.org/10.1038/s44318-025-00585-z . Super-fun collaboration with @partchlab.bsky.social & @gotworms.bsky.social to find similarities between developmental and circadian clocks – supported by @fmiscience.bsky.social Facilities and, financially, @snsf.ch and @erc.europa.eu . 1/n
October 20, 2025 at 1:25 PM
And the next one: dx.doi.org/10.1038/s44318-025-00585-z . Super-fun collaboration with @partchlab.bsky.social & @gotworms.bsky.social to find similarities between developmental and circadian clocks – supported by @fmiscience.bsky.social Facilities and, financially, @snsf.ch and @erc.europa.eu . 1/n
Reposted by Stephen Methot
Shared mechanisms across distinct biological clocks:
Jordan Ward @gotworms.bsky.social , Helge Grosshans @labgrosshans.bsky.social & collaborators find the nematode homologs of mammalian circadian clock proteins PERIOD & CK1 to control developmental timing in worms
www.embopress.org/doi/full/10....
Jordan Ward @gotworms.bsky.social , Helge Grosshans @labgrosshans.bsky.social & collaborators find the nematode homologs of mammalian circadian clock proteins PERIOD & CK1 to control developmental timing in worms
www.embopress.org/doi/full/10....
October 21, 2025 at 12:40 PM
Shared mechanisms across distinct biological clocks:
Jordan Ward @gotworms.bsky.social , Helge Grosshans @labgrosshans.bsky.social & collaborators find the nematode homologs of mammalian circadian clock proteins PERIOD & CK1 to control developmental timing in worms
www.embopress.org/doi/full/10....
Jordan Ward @gotworms.bsky.social , Helge Grosshans @labgrosshans.bsky.social & collaborators find the nematode homologs of mammalian circadian clock proteins PERIOD & CK1 to control developmental timing in worms
www.embopress.org/doi/full/10....
Reposted by Stephen Methot
Generate synthetic cryo-ET data and train your model for particle picking in real data.
Impressive work by Mohamad Harastani:
www.nature.com/articles/s41...
Impressive work by Mohamad Harastani:
www.nature.com/articles/s41...
Template Learning: Deep learning with domain randomization for particle picking in cryo-electron tomography - Nature Communications
Particle picking is a key bottleneck in bridging structural and cell biology with cryo-electron tomography. Here, authors develop Template Learning, using domain-randomized simulations to train deep l...
www.nature.com
October 17, 2025 at 3:53 PM
Generate synthetic cryo-ET data and train your model for particle picking in real data.
Impressive work by Mohamad Harastani:
www.nature.com/articles/s41...
Impressive work by Mohamad Harastani:
www.nature.com/articles/s41...
Reposted by Stephen Methot
🎥 FMI scientists discovered that thousands of C. elegans genes switch on and off in rhythmic patterns controlled by chromatin, revealing how gene timing shapes development & offering clues to human biological clocks. @labgrosshans.bsky.social www.youtube.com/watch?v=Dibw...
DNA rhythms orchestrate gene activity across development
YouTube video by The Friedrich Miescher Institute for Biomedical Research
www.youtube.com
October 15, 2025 at 6:58 AM
🎥 FMI scientists discovered that thousands of C. elegans genes switch on and off in rhythmic patterns controlled by chromatin, revealing how gene timing shapes development & offering clues to human biological clocks. @labgrosshans.bsky.social www.youtube.com/watch?v=Dibw...
Reposted by Stephen Methot
October 12, 2025 at 9:25 AM
Reposted by Stephen Methot
Paper alert! doi.org/10.1038/s443... - "A scheduler for rhythmic gene expression". We show how 9 txn factors suffice for rhythmic gene expression of thousands of genes with any phase or amplitude in #Celegans larvae (and also look at the tissues where oscillations happen) 1/n
October 10, 2025 at 2:17 PM
Paper alert! doi.org/10.1038/s443... - "A scheduler for rhythmic gene expression". We show how 9 txn factors suffice for rhythmic gene expression of thousands of genes with any phase or amplitude in #Celegans larvae (and also look at the tissues where oscillations happen) 1/n
Reposted by Stephen Methot
Preprint by the Grosshans lab w/ co-1st authors Dimos Gaidatzis, Maike Graf-Landua & Stephen P. Methot "A scheduler for rhythmic gene expression" @biorxivpreprint.bsky.social
doi.org/10.1101/2025...
@labgrosshans.bsky.social
@smethot.bsky.social
@fmiscience.bsky.social
doi.org/10.1101/2025...
@labgrosshans.bsky.social
@smethot.bsky.social
@fmiscience.bsky.social
October 1, 2025 at 7:15 AM
Preprint by the Grosshans lab w/ co-1st authors Dimos Gaidatzis, Maike Graf-Landua & Stephen P. Methot "A scheduler for rhythmic gene expression" @biorxivpreprint.bsky.social
doi.org/10.1101/2025...
@labgrosshans.bsky.social
@smethot.bsky.social
@fmiscience.bsky.social
doi.org/10.1101/2025...
@labgrosshans.bsky.social
@smethot.bsky.social
@fmiscience.bsky.social
Reposted by Stephen Methot
📖 Happy to share our recent preprint! www.biorxiv.org/content/10.1... We discovered how SINEs are kept silent: the ChAHP protein complex acts as a molecular brake on POL III transcription retrotransposons. A 🧵:
ChAHP Silences SINE Retrotransposons by Inhibiting TFIIIB Recruitment
Short interspersed nuclear elements (SINEs) are abundant non-autonomous transposable elements derived from RNA polymerase III (POL III)-transcribed short non-coding RNAs. SINEs retain sequence feature...
www.biorxiv.org
July 3, 2025 at 6:18 AM
📖 Happy to share our recent preprint! www.biorxiv.org/content/10.1... We discovered how SINEs are kept silent: the ChAHP protein complex acts as a molecular brake on POL III transcription retrotransposons. A 🧵:
Reposted by Stephen Methot
We’re excited to host the next TriRhena Gene Regulation Club on November 5!
Attendance is free, but registration (by October 20) is mandatory 👇🏽
Attendance is free, but registration (by October 20) is mandatory 👇🏽
👉 The next TriRhena Gene Regulation Club takes place at the Friedrich Miescher Institute @fmiscience.bsky.social in Basel.
📅 Nov. 5th, 2025 (14:00-20:00)
📌 FMI, Basel
✍️ Registration deadline: Oct. 20th, 2025
Attendance is free 💸 , but registration mandatory:
www.ie-freiburg.mpg.de/gene-regulat...
📅 Nov. 5th, 2025 (14:00-20:00)
📌 FMI, Basel
✍️ Registration deadline: Oct. 20th, 2025
Attendance is free 💸 , but registration mandatory:
www.ie-freiburg.mpg.de/gene-regulat...
TriRhena Gene Regulation Club
The TriRhena Gene Regulation Club is a one-day symposium that brings together researchers from France (IGBMC), Germany (MPI-IE) and Switzerland (FMI) who share a common interest in gene regulation.
www.ie-freiburg.mpg.de
September 26, 2025 at 8:25 AM
We’re excited to host the next TriRhena Gene Regulation Club on November 5!
Attendance is free, but registration (by October 20) is mandatory 👇🏽
Attendance is free, but registration (by October 20) is mandatory 👇🏽
Reposted by Stephen Methot
Really excited to share our latest work led by @mattiaubertini.bsky.social and @nesslfy.bsky.social: we report that cohesin loop extrusion creates rare but long-lived encounters between genomic sequences which underlie efficient enhancer-promoter communication.
www.biorxiv.org/content/10.1...
A🧵👇
www.biorxiv.org/content/10.1...
A🧵👇
September 24, 2025 at 9:45 PM
Really excited to share our latest work led by @mattiaubertini.bsky.social and @nesslfy.bsky.social: we report that cohesin loop extrusion creates rare but long-lived encounters between genomic sequences which underlie efficient enhancer-promoter communication.
www.biorxiv.org/content/10.1...
A🧵👇
www.biorxiv.org/content/10.1...
A🧵👇
Reposted by Stephen Methot
I am excited to announce that we are looking for a Lab Manager @fmiscience.bsky.social in Basel. If you want to be part of a growing team investigating development and tissue formation, and are enthusiastic about helping set up a new lab, please check out the role:
www.fmi.ch/education-ca...
www.fmi.ch/education-ca...
September 14, 2025 at 11:46 AM
I am excited to announce that we are looking for a Lab Manager @fmiscience.bsky.social in Basel. If you want to be part of a growing team investigating development and tissue formation, and are enthusiastic about helping set up a new lab, please check out the role:
www.fmi.ch/education-ca...
www.fmi.ch/education-ca...
Reposted by Stephen Methot
New preprint!
How are developmental cycles coordinated across cell types?
It turns out that, like Geppetto's cuckoo clocks in the GIF below, individual cell types are each performing their own little crazy routine, but all in sync with each other.
How are developmental cycles coordinated across cell types?
It turns out that, like Geppetto's cuckoo clocks in the GIF below, individual cell types are each performing their own little crazy routine, but all in sync with each other.
a bunch of clocks are hanging on a wall including one that says ' 3:00 ' on it
ALT: a bunch of clocks are hanging on a wall including one that says ' 3:00 ' on it
media.tenor.com
September 7, 2025 at 1:45 PM
New preprint!
How are developmental cycles coordinated across cell types?
It turns out that, like Geppetto's cuckoo clocks in the GIF below, individual cell types are each performing their own little crazy routine, but all in sync with each other.
How are developmental cycles coordinated across cell types?
It turns out that, like Geppetto's cuckoo clocks in the GIF below, individual cell types are each performing their own little crazy routine, but all in sync with each other.
Reposted by Stephen Methot
🚨 We're hiring, please share! The FMI seeks a tenure-track Group Leader (Assistant Prof) in Structural Biology 🔬
Innovative scientists in genome regulation, RNA metabolism, or protein homeostasis—especially using cutting-edge approaches—apply now at www.fmi.ch/education-ca...
Innovative scientists in genome regulation, RNA metabolism, or protein homeostasis—especially using cutting-edge approaches—apply now at www.fmi.ch/education-ca...
September 8, 2025 at 8:15 AM
🚨 We're hiring, please share! The FMI seeks a tenure-track Group Leader (Assistant Prof) in Structural Biology 🔬
Innovative scientists in genome regulation, RNA metabolism, or protein homeostasis—especially using cutting-edge approaches—apply now at www.fmi.ch/education-ca...
Innovative scientists in genome regulation, RNA metabolism, or protein homeostasis—especially using cutting-edge approaches—apply now at www.fmi.ch/education-ca...
Reposted by Stephen Methot
Is euchromatin really “open”? Our new study @bioRxiv suggests otherwise. Using super-resolution imaging @shiori-iida.bsky.social @masaashimazoe.bsky.social reveals: Euchromatin forms condensed domains in live cells. Cohesin constrains them and prevents domain mixing.
www.biorxiv.org/cgi/content/...
www.biorxiv.org/cgi/content/...
August 28, 2025 at 4:18 AM
Is euchromatin really “open”? Our new study @bioRxiv suggests otherwise. Using super-resolution imaging @shiori-iida.bsky.social @masaashimazoe.bsky.social reveals: Euchromatin forms condensed domains in live cells. Cohesin constrains them and prevents domain mixing.
www.biorxiv.org/cgi/content/...
www.biorxiv.org/cgi/content/...
Reposted by Stephen Methot
I am excited to share that I will join the Friedrich Miescher Institute @fmiscience.bsky.social in Basel as a group leader, starting my lab in March 2026 🎉
We will explore cell fate regulation during organogenesis, with a focus on how cell elimination underlies the emergence of functional tissues.
We will explore cell fate regulation during organogenesis, with a focus on how cell elimination underlies the emergence of functional tissues.
August 25, 2025 at 5:21 PM
I am excited to share that I will join the Friedrich Miescher Institute @fmiscience.bsky.social in Basel as a group leader, starting my lab in March 2026 🎉
We will explore cell fate regulation during organogenesis, with a focus on how cell elimination underlies the emergence of functional tissues.
We will explore cell fate regulation during organogenesis, with a focus on how cell elimination underlies the emergence of functional tissues.
Reposted by Stephen Methot
Excited to share our latest preprint. www.biorxiv.org/content/10.1.... Lead by Lukas, we investigated multiple ways of assessing a TF's sensitivity to chromatin based on genome-wide binding profiles. The developed methods allowed us to quantify chromatin sensitivity across tested TFs.
A novel deep learning-based framework reveals a continuum of chromatin sensitivities across transcription factors
The genome-wide binding of many transcription factors (TFs) depends not only on the presence of their recognition motifs, but also on the surrounding chromatin context. This raises the question of how...
www.biorxiv.org
August 12, 2025 at 8:32 AM
Excited to share our latest preprint. www.biorxiv.org/content/10.1.... Lead by Lukas, we investigated multiple ways of assessing a TF's sensitivity to chromatin based on genome-wide binding profiles. The developed methods allowed us to quantify chromatin sensitivity across tested TFs.
Reposted by Stephen Methot
Excited to see this published with additional data following our preprint a while back. Cool combination (in our biased view) of controlled TF expression and machine learning to decode chromatin sensitivity. www.sciencedirect.com/science/arti....
August 7, 2025 at 4:20 PM
Excited to see this published with additional data following our preprint a while back. Cool combination (in our biased view) of controlled TF expression and machine learning to decode chromatin sensitivity. www.sciencedirect.com/science/arti....
Reposted by Stephen Methot
After 10 years of work, a complete telomere-to-telomere gap-free genome for C. elegans finally exists: it has 106 Mb rather than the textbook 100.3 Mb, and up to 366 additional genes.
genome.cshlp.org/content/35/8...
genome.cshlp.org/content/35/8...
August 1, 2025 at 9:55 PM
After 10 years of work, a complete telomere-to-telomere gap-free genome for C. elegans finally exists: it has 106 Mb rather than the textbook 100.3 Mb, and up to 366 additional genes.
genome.cshlp.org/content/35/8...
genome.cshlp.org/content/35/8...
Reposted by Stephen Methot
📢Master thesis project opportunity
‼️We are looking for a motivated Master student to join the lab working on semi-automated analysis pipelines for organoid microscopy images.
Please spread the word and check out our website for more information: www.annikahausmannlab.com
‼️We are looking for a motivated Master student to join the lab working on semi-automated analysis pipelines for organoid microscopy images.
Please spread the word and check out our website for more information: www.annikahausmannlab.com
July 18, 2025 at 3:08 PM
📢Master thesis project opportunity
‼️We are looking for a motivated Master student to join the lab working on semi-automated analysis pipelines for organoid microscopy images.
Please spread the word and check out our website for more information: www.annikahausmannlab.com
‼️We are looking for a motivated Master student to join the lab working on semi-automated analysis pipelines for organoid microscopy images.
Please spread the word and check out our website for more information: www.annikahausmannlab.com
Reposted by Stephen Methot
Very excited to share the first preprint of the lab! We show that the nuclear pore protein TPR forms biomolecular condensates which keep heterochromatin away from the nuclear pore complexes and maintains global chromatin organization. Check it out, share it, tell us what you think!!
Biomolecular condensates at the nuclear pore basket maintain global chromatin organization https://www.biorxiv.org/content/10.1101/2025.07.18.665545v1
July 21, 2025 at 5:52 PM
Very excited to share the first preprint of the lab! We show that the nuclear pore protein TPR forms biomolecular condensates which keep heterochromatin away from the nuclear pore complexes and maintains global chromatin organization. Check it out, share it, tell us what you think!!
Job opening in my research group!! Please share.
I'm looking for a lab technician to join my small team investigating how chromatin structure regulates gene expression in C. elegans.
www.fmi.ch/education-ca...
I'm looking for a lab technician to join my small team investigating how chromatin structure regulates gene expression in C. elegans.
www.fmi.ch/education-ca...
Friedrich Miescher Institute, open position
Friedrich Miescher Institute, open position
www.fmi.ch
March 14, 2025 at 8:24 AM
Job opening in my research group!! Please share.
I'm looking for a lab technician to join my small team investigating how chromatin structure regulates gene expression in C. elegans.
www.fmi.ch/education-ca...
I'm looking for a lab technician to join my small team investigating how chromatin structure regulates gene expression in C. elegans.
www.fmi.ch/education-ca...