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Reposted by Michela Palamin

Arnaud Krebs @arnaudkr.bsky.social · 14/09/2026

your starter pack for Single Molecule Genomics! Why you should do it (or not) - How you should do it. Collective effort with @vram142.bsky.social @stirlingchurchman.bsky.social @naltemose.bsky.social A Stergachis M Stadler W Greenleaf @embl.org rdcu.be/PmzSEV529GRa

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Reposted by Michela Palamin

FragileNucleosome @fnucleosome.bsky.social · 03/09/2026

🎤 #FragileNucleosome is back next Wednesday! Hope you enjoyed the summer!Join us next 📅Wednesday to hear about 🧬fascinating research from @mpalamin.bsky.social from Krebs lab and @robertovn.bsky.social from Vos lab. To register if you haven't before: us06web.zoom.us/webinar/regi...

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Reposted by Michela Palamin

FragileNucleosome @fnucleosome.bsky.social · 14/06/2026

🧬This Wednesday will be the final seminar of the Spring 2026 #FNucleosome schedule, and we've got a great one lined up! Join us to hear about the outstanding research of @annanordin.bsky.social, @valentinabaderna.bsky.social, and @kezlane.bsky.social! register here: us06web.zoom.us/webinar/regi...

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

Glad you like it! Really appreciated having your feedback along the way!

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

Thanks! That sounds like an exciting application indeed, long reads could definitely open up new possibilities for repetitive regions! Best of luck if you give it a try, and feel free to reach out if you want to discuss ideas further! 😊

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

ChromSMF opens the door to study: ✅ how multi-layer gene regulation is coordinated ✅ how TF binding and chromatin state influence each other ✅ how chromatin states change over time All in one assay ⚙️🧩. Check it out, we are curious to know what you think! 🙌 www.biorxiv.org/content/10.6... 8/8

biorxiv.org

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

Because sequence information is preserved, we also get allele-specific chromatin states, even without a reference genome! 🧬 Haplotype-aware epigenomics analysis unlocked! 🔓 7/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

Long reads add another dimension 🔗 Ever wondered about long-range relationships between histone modification and chromatin accessibility? ChromSMF can now link chromatin features across multi-kb regions on the same molecule!! Look how this entire locus is kept open when H3K27ac is present! 🔥 6/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

We applied ChromSMF to profile: 🟢 three active marks (H3K4me3, H3K27ac, H3K4me1) 🛑 two repressive marks (H3K27me3, H3K9me3) in Drosophila 🪰 and mouse 🐭 cell lines. 5/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

Why does it matter? 🤔 At any locus, we can now directly: • measure epigenetic heterogeneity • quantify combinatorial chromatin states • link regulatory layers without averaging These mixed states are largely invisible in bulk assays 👀 4/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

The idea? Combining multiple signals into one readout! 👣 cytosine methylation footprinting → protein-DNA interactions 🎯 antibody-guided adenine methylation → histone modifications 🧬 Nanopore sequencing → direct methylation detection on long reads → one molecule, multiple regulatory layers 🔗🧩 3/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

In a single ChromSMF experiment, we can profile: 1️⃣ Chromatin Accessibility 2️⃣ Histone Modifications 3️⃣ TF binding 4️⃣ DNA methylation All together, genome-wide, on single multi-kb long DNA molecules 🧬 2/8

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Michela Palamin @mpalamin.bsky.social · 24/03/2026

ChromSMF preprint is out!🚀 tinyurl.com/ChromSMF We often piece together chromatin regulation layer by layer from separate assays. But this can be limiting! In @arnaudkr.bsky.social's lab, we developed a method to directly study multiple layers on the same DNA molecule! 🧬 What does this unlock? ⬇️

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Michela Palamin @mpalamin.bsky.social · 11/03/2026

Tomorrow I’ll be presenting at the 2026 CSHL Systems Biology meeting! 🧬 Join to hear about ChromSMF, a genomic method for integrated measurement of histone modifications, protein-DNA interactions, and DNA methylation on the same multi-kilobase DNA molecules! 🚀 Preprint coming soon 😉

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Michela Palamin @mpalamin.bsky.social · 21/07/2025

First time posting here — and first-ever Single Molecule Conference 🧬 Held right at @embl.org Heidelberg, where I work! 4 days full of great science and great people. Fantastic meeting! 🔬 Curious to see where the single molecule field is going next! 👀 #EMBLSingleMolecule @events.embl.org

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