Illustration of a fly and cellular structures connected by red and black thread-like lines inside a circle with a blue dot labeled 'TF' and text 'AlHaj Abed LAB' and 'Postdoctoral Researcher (m/w/d) Max Planck Institute of Immunobiology & Epigenetics'

Text listing tasks in AlHaj Abed lab including Hi-C and Micro-C analysis, adapting multi-way contact genomic tools for Drosophila, building visualization framework for Pore-C data, image analysis, and programming in R and/or Python

Text listing reasons to appreciate the Max Planck Institute in Freiburg including collaborative culture, core facilities, grants, scientific network, international diversity, public benefits, family support, relocation service, social life, and location, with a website link

Logo of the Max Planck Society; below text inviting to join the AlHaj Abed Lab with application deadline April 8, 2026, and a project website URL

🚨 Postdoc in 3D genome architecture – join the @jumanaaha.bsky.social lab at the MPI-IE, Freiburg (🇩🇪)

The wonderful lab of Jumana AlHaj Abed is pushing the limits of how chromosomes fold and interaction – and we need someone who can code, image, & think across scales.

Apply here: s.gwdg.de/9c8838

Partially it digests itself, what's left will be inactivated by high salt and/or ethanol washes. (Probably it's not even necessary and just direct SPRI bead purification would work, library prep is not so sensitive to some protein contaminants). I just prefer it over alcohol precipitation...

Maybe just digest with ProtK and then AMPure beads? Unless you have very short fragments, at high ratio it should work well imo.

Three-dimensional genome reorganization foreshadows zygotic genome activation in Drosophila - Nature Genetics Pico-C, a low-input Micro-C approach, reveals that dynamic three-dimensional genome folding precedes zygotic genome activation in Drosophila.

Excited to share my PhD work!

The question: How is genome organization established? Here, we developed a low-input Micro-C method, Pico-C, and used it to map chromatin architecture across early stages of fly development.

Here’s a quick Blue-torial 🙂 (1/n)

www.nature.com/articles/s41...

Delighted to see this published: H3K115 acetylation is associated with fragile nucleosomes at CpG island promoters and active regulatory sites. Great work from all contributors; Yatendra Kumar, @illingworth-lab.bsky.social @eliasfriman.bsky.social @helink.bsky.social

doi.org/10.7554/eLif...

🚨 Job Alert - Please share! 🙏

Interested in 3D gene regulation in development & evolution? 🤓🧬

💥 Our lab at @cabd-upo-csic.bsky.social is expanding!

We’re recruiting:
✅ PhD students
✅ Postdocs
💻🧪 Experimental or computational backgrounds welcome

👇 Details below

Marimo? There is an extension for VS Code, I think it should work just like Jupyter notebooks in this regard... I have been meaning to set it up too, looks cool

Our Lab is searching a postdoc for an exciting ERC-funded project that will start this summer. Apply if you’re passionate about multi-omics, cutting-edge computational approaches, and exploring biological questions across the animal 🪼 🪱 🐞 🦎 🦋 🕷️ tree of life www.biozentrum.unibas.ch/open-positio...

Congrats Noura! 🎉

💫 We're hiring! The Computational Biology Facility is looking for a Computational Proteomics Scientist to collaborate on cutting-edge proteomics projects, develop new analytical approaches, and publish impactful research.
Apply by April 12 at: www.fmi.ch/education-ca...

Terrific paper on a new chromosomal
compartment where extensive loop
extrusion isolates domains from
other such domains

Have you wondered how the rules of chromatin folding have evolved? Well, this task is not easy to formalize. But here is our take on it: train species-specific DNA-to-chromatin encoder, apply to DNA of unseen species, and build chromatin rules-based tree of life. Have a look:
doi.org/10.1093/nar/...

That sounds amazing!

Ah wow, I'm not a protein person, but that sounds easy😅 Thanks, I'll reach out if I decide to try it!

Well, a while ago was a few months ago... So I doubt it. Actually in this paper there is a custom more convenient version

Yeah I wanted to try this enzyme a while ago too, saw some papers using it for ChIP or something like that... but you have to purify it yourself😅 I wish it was available commercially, I would like to try it

Would anyone out there be able to share some Mus Spretus DNA with us? 🐀🧬 Any tissue of origin, for PCR amplification of selected genomic regions. Many thanks in advance!

In this specific paper there is a focus on two loci, one is I think >100kb. I offered you to try modeling this data many years ago😂

Far!

Transcription decouples estrogen-dependent changes in enhancer-promoter contact frequencies and spatial proximity - PubMed How enhancers regulate their target genes in the context of 3D chromatin organization is extensively studied and models which do not require direct enhancer-promoter contact have recently emerged. Here, we use the activation of estrogen receptor-dependent enhancers in a breast cancer cell line to st …

Nuclear hormone receptor enhancers activate gene expression within like 15 min, at this sort of distance... E.g. see here, but there is a ton of literature pubmed.ncbi.nlm.nih.gov/38781242/

🚨 Want to do a #Phd using high-throughput mutagenesis and CRISPR screens to understand how gene body methylation impacts transcription in collaboration with Greg Kudla's group? Do apply, deadline in a week! www.findaphd.com/phds/project...
Deadline 15th December 2025
#epigenetics Please share 🙏

📢 Last days to apply for our #PhD and #MDPhD programs! Become part of Basel, Europe’s #LifeScience hub, and grow in a dynamic, international, and supportive community. Apply by Nov 15: www.fmi.ch/education-ca...

📣 Paper alert!

I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today!
journals.biologists.com/dev/article/...

Last chance to become a mentor in Sci.STEP, the call is about to close!

Congrats Wendy and team! Great news!

We are looking for mentors for the Sci.STEPS program! Please apply if you want to help your junior colleagues around the globe navigate their career path in any science related field.

Hi Marc, "minutes" is correct :) The CTCF and cohesin mediated loops, at least measured in those studies, are very stable

If you are curious about how cohesin regulates chromosome contact dynamics and its role in enhancer-promoter communication, check out our latest work. It’s been really fun to work with @nesslfy.bsky.social and @lucagiorgetti.bsky.social. Hope you enjoy reading it!

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🧵👇

Congrats, Charlene, amazing news!