Lightnews — Scholar-powered news

Arnaud Krebs @arnaudkr.bsky.social · 3h

Great news. Congrats!

Reposted by Arnaud Krebs

Bart Deplancke @bartdeplancke.bsky.social · 2d

🧵1/ Excited to share our new paper introducing a new #singlecell assay: scTF-seq, a high-throughput single-cell approach to explore how transcription factor (TF) dose shapes cell identity and reprogramming outcomes. 🔗 www.nature.com/articles/s41... Big congrats to the entire team @EPFL & @SIAT_China

Dissecting the impact of transcription factor dose on cell reprogramming heterogeneity using scTF-seq - Nature Genetics

This study introduces single-cell transcription factor (TF) sequencing, a single-cell barcoded and doxycycline-inducible TF overexpression approach that reveals dose-sensitive functional classes of TFs and cellular heterogeneity by mapping TF dose-dependent transcriptomic changes during the reprogramming of mouse embryonic multipotent stromal cells.

www.nature.com

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Reposted by Arnaud Krebs

Christa Buecker @chribue.bsky.social · 2d

Congratulations! nice to see this out!

Bart Deplancke @bartdeplancke.bsky.social · 2d

🧵1/ Excited to share our new paper introducing a new #singlecell assay: scTF-seq, a high-throughput single-cell approach to explore how transcription factor (TF) dose shapes cell identity and reprogramming outcomes. 🔗 www.nature.com/articles/s41... Big congrats to the entire team @EPFL & @SIAT_China

Dissecting the impact of transcription factor dose on cell reprogramming heterogeneity using scTF-seq - Nature Genetics

This study introduces single-cell transcription factor (TF) sequencing, a single-cell barcoded and doxycycline-inducible TF overexpression approach that reveals dose-sensitive functional classes of TFs and cellular heterogeneity by mapping TF dose-dependent transcriptomic changes during the reprogramming of mouse embryonic multipotent stromal cells.

www.nature.com

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Reposted by Arnaud Krebs

VIB.AI @vibai.bsky.social · 15d

We're growing the VIB.AI Machine Learning Unit, and we're hiring!

📌 Head of the Machine Learning Unit
📌 LLM Engineer

Both roles are based in Leuven, Belgium, at the heart of a thriving research ecosystem.
https://vib.ai/en/opportunities#/job-list
Apply by October 31st.

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Reposted by Arnaud Krebs

Rob Schneider @robertife.bsky.social · 16d

#Jobalert 🚨: Please RT !
Looking for a #PhD student for exciting project on the interphase between epigenetics and cellular metabolism:
How do (nuclear) metabolic enzymes reguate chromatin function ?
#epigenomics, #epigenetics, #metabolism
www.helmholtz-munich.de/en/ife/job-o...

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Reposted by Arnaud Krebs

mathiaseder.bsky.social @mathiaseder.bsky.social · 19d

✨Exciting news: the main story of my PhD is out in Science!

Together with Christine Moene @cmoene.bsky.social, we explored what happens when you scramble the genome—revealing how Sox2’s position shapes enhancer activation.

📖 Read the full story here: www.science.org/doi/10.1126/...

Functional maps of a genomic locus reveal confinement of an enhancer by its target gene

Genes are often activated by enhancers located at large genomic distances, and the importance of this positioning is poorly understood. By relocating promoter-reporter constructs into thousands of alt...

www.science.org

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Arnaud Krebs @arnaudkr.bsky.social · 16d

Spectacular work Christine & co! Congrats! Happy to see this out.

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Reposted by Arnaud Krebs

Christine Moene @cmoene.bsky.social · 19d

Have you ever wondered how the exact location of a gene affects it's activity?

The main story of my PhD deals with exactly that question, and is now published in Science! ✨
www.science.org/doi/10.1126/...

My amazing co-author and friend @mathiaseder.bsky.social summarized the highlights for you

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Arnaud Krebs @arnaudkr.bsky.social · 21d

🤞

Arnaud Krebs @arnaudkr.bsky.social · 21d

This feeling usually precedes an emergency call from the kita or school :)

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Reposted by Arnaud Krebs

EMBL @embl.org · 27d

Join EMBL AI!

We have ambitious plans to transform life sciences research through AI.

Interested in using ML/AI to solve complex interdisciplinary challenges?

We’re looking for two senior leaders based at EMBL Heidelberg👇

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Reposted by Arnaud Krebs

FragileNucleosome @fnucleosome.bsky.social · 28d

We're getting started in ~90 minutes!

In addition to watching the seminars, remember you can join us on Discord to chat about transcription and chromatin whenever you want! discord.com/invite/dXqT89r

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Reposted by Arnaud Krebs

László Tora @tlaszlo.bsky.social · 28d

Do not forget to apply to the FEBS Advanced Lecture Course: 6th Danube Conference on Epigenetics (19–22 October 2026, Budapest, Hungary. Will be a great meeting as always. Check out the site: network.febs.org/posts/febs-a...

FEBS Advanced Lecture Course: 6th Danube Conference on Epigenetics

The FEBS Advanced Lecture Course: 6th Danube Conference on Epigenetics will take place 19–22 October 2026 in Budapest, Hungary. Here we give a taste of the scientific content, flag some of the speaker...

network.febs.org

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Reposted by Arnaud Krebs

Surfin' NuRD @surfinnurd.bsky.social · Aug 30

Check it out, Chromatin Kids!

Chromatin remodeller does stuff to Transcription Factors!

Functions where it is seldom seen!

Both decreases and increases chromatin accessibility!

How cool is that?

bioRxiv Molecular Biology @biorxiv-molbio.bsky.social · Aug 30

The chromatin remodeller CHD4 controls both nucleosome integrity and transcription factor binding to promote activity of active regulatory elements and to prevent activation of silent enhancers https://www.biorxiv.org/content/10.1101/2025.08.29.672645v1

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Reposted by Arnaud Krebs

janeskok.bsky.social @janeskok.bsky.social · 28d

Excited to share another new preprint from our lab in which we developed a cluster-based phasing strategy using long read nano-NOMe-seq data to link distinct CTCF binding states—captured at the single molecule level—to the transcriptional status of genes: biorxiv.org/content/10.1...

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Reposted by Arnaud Krebs

Luca Giorgetti lab @FMI @lucagiorgetti.bsky.social · Sep 8

Become our colleague at @fmiscience.bsky.social! The FMI is a very special place to start your lab: a vibrant international institute with world-class research groups and facilities, core funding, fantastic trainees, great colleagues😅, and a collegial culture. Get in touch if you're interested!

FMI science @fmiscience.bsky.social · Sep 8

🚨 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...

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Reposted by Arnaud Krebs

Norwegian Centre for Molecular Biosciences and Medicine (NCMBM) @ncmbm.bsky.social · Sep 8

📢Last chance today! We are looking forward to receiving your applications👇!

Norwegian Centre for Molecular Biosciences and Medicine (NCMBM) @ncmbm.bsky.social · Jun 30

📣 We’re recruiting 1-2 Group Leaders! NCMBM is looking for early-career researchers ready to establish their independent research groups!

🧬 With an attractive start-up package, help us shape the future of molecular biosciences and medicine in 🇳🇴 and be part of the @nordicembl.bsky.social!

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Arnaud Krebs @arnaudkr.bsky.social · Aug 20

Thanks Max

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Arnaud Krebs @arnaudkr.bsky.social · Aug 20

Thanks. Will check after holidays ;-).

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Arnaud Krebs @arnaudkr.bsky.social · Aug 19

Thanks!

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Reposted by Arnaud Krebs

Ewan Birney @ewanbirney.bsky.social · Aug 18

Just brilliat work by Kasit and colleagues in @arnaudkr.bsky.social's group @embl.org. This is leveraging the "everyday" length of ONT (20KB) plus exogenous modification to sort out co-occupancy between enhancers and promoters (and inter-enhancer).

kasitc.bsky.social @kasitc.bsky.social · Aug 18

Activity of most genes is controlled by multiple enhancers, but is there activation coordinated? We leveraged Nanopore to identify a specific set of elements that are simultaneously accessible on the same DNA molecules and are coordinated in their activation. www.biorxiv.org/content/10.1...

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Reposted by Arnaud Krebs

Mathias Boulanger @mathias-boulanger.bsky.social · Aug 18

Huge thanks to the co-first author @kasitc.bsky.social Also thanks to Rene, Marc Jan, Karine, Kim, and especially @arnaudkr.bsky.social @embl.org @dfg.de.
Finally, Kasit will be presenting the story at the @cshlnews.bsky.social #cshlmoet next week! Please stop by if you are around!

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Arnaud Krebs @arnaudkr.bsky.social · Aug 18

This is not a HiC map! Ever wondered if multiple enhancers get activated simultaneously? We measured chromatin accessibility on thousands of molecules by nanopore to create genome-wide co-accessibility maps. Proud of @mathias-boulanger.bsky.social @kasitc.bsky.social Biology in the thread👇

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Reposted by Arnaud Krebs

Nature Reviews Genetics @natrevgenet.nature.com · Aug 18

Our featured article:
Epigenome dynamics in early mammalian embryogenesis by Adam Burton & Maria-Elena Torres-Padilla go.nature.com/45UA8Ob

Epigenome dynamics in early mammalian embryogenesis - Nature Reviews Genetics

Upon fertilization and during early mammalian development, major changes in cellular plasticity occur. This is accompanied by large-scale epigenome remodelling, as has been recently highlighted by the...

go.nature.com

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Reposted by Arnaud Krebs

EMBL Events @events.embl.org · Aug 15

🎉 Congrats to the poster prize winners at #EMBLSingleMolecule!

🏅 Adam Cawte, University of Oxford, UK
🏅 Masa Shimazoe, National Institute of Genetics, Japan

🧬 Explore their winning abstracts & posters in our latest blog post:

🔗 https://s.embl.org/grg25-01-posters

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