Elzo de Wit lab @ NKI (@dewitlab)

Job Details

Pls re-post: My department @oxfordbiochemistry.bsky.social are recruiting for several new faculty positions (links below). Broad search in molecular biology/biochemistry, across prokaryotes and eukaryotes. Interested in understanding life at the molecular level, this job might be for you!
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05.03.2026 21:35 👍 85 🔁 123 💬 2 📌 3

🚨 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

06.03.2026 10:14 👍 21 🔁 20 💬 1 📌 3

Ascona workshop "Statistical and AI methods for multi-modal multi-scale modeling of biological systems", 28 June - 3 July.

Deadline for registration Mon 16 March, 23:59 CET.
There are ~10-12 places left.

03.03.2026 07:55 👍 14 🔁 7 💬 0 📌 1

If you want to explore ncRNA dynamics during mammalian development, love microscopy, and are not afaraid of transposons biology, apply‼️
We are looking for a postdoc to join our team at @imbavienna.bsky.social
More details 👇🏻

02.03.2026 12:25 👍 23 🔁 28 💬 0 📌 0

We wrote a piece on how easy it is to write gene regulatory sequences. - Turns out, it isn't that easy even though we know a lot about cis-regulation.

huge credit to @carldeboer.bsky.social to seeing this through so our thoughts aren't lost. I promise, it's a worthwhile read!

27.02.2026 08:27 👍 28 🔁 12 💬 0 📌 0

Chromatin spatial analysis by METALoci unveils sex-determining 3D regulatory hubs Nature Structural & Molecular Biology - METALoci, a new three-dimensional genome computational tool, reveals a major rewiring of regulatory interactions during sex determination. By combining...

🤩💪 Out now! 3D regulatory hubs in sex determination

With @mamartirenom.bsky.social & Capel labs, led by @imotagom.bsky.social & @jrotwitguez.bsky.social

1️⃣ METALoci – explore #3DGenome 🧬
2️⃣ Non-coding region controlling Fgf9 🧩
3️⃣ Meis genes = new key players 🌟

👉 rdcu.be/e5sm2

1/n Bluetorial 👇

24.02.2026 14:02 👍 59 🔁 26 💬 1 📌 2

We;re hiring Junior Group Leaders! 🔬✨
We’re looking for researchers in immunology, chemical biology, AI in biology, or protein design to launch their own independent groups in our collaborative, international environment.

www.nki.nl/news-events/...

20.02.2026 13:32 👍 14 🔁 20 💬 0 📌 1

Excited to share @suminkim.bsky.social and @mileshuseyin.bsky.social 's new Current Opinion review on how Polycomb complexes mediate 3D genome interactions including mechanistic models and potential roles in gene regulation:
www.sciencedirect.com/science/arti...

18.02.2026 22:03 👍 60 🔁 18 💬 1 📌 2

Computational Postdoc | Netherlands Cancer Institute Computational Postdoc Voest Lab (fully funded) — Spatial Decoding of Unconventional Antitumor Immunity in Colorectal Cancer

Postdoc alert in spatial biology!

Building upon our previous work with MSI cancers (e.g. de Vries et al, Nature, 2023), the Voest Group at the NKI is hiring a (fully funded) postdoctoral fellow with strong expertise in spatial cancer biology.

Learn more / apply here: www.nki.nl/careers-stud...

15.02.2026 18:59 👍 11 🔁 13 💬 3 📌 0

Acute NIPBL depletion reveals in vivo dynamics of loop extrusion and its role in transcription activation - Nature Genetics Acute depletion of NIPBL reveals a class of chromatin loops that are independent of NIPBL for their maintenance but not their establishment and that NIPBL is necessary for the expression of lineage-de...

Very excited to share my postdoc research in the @jesserdixon.bsky.social lab at @salkinstitute.bsky.social, out online at @natgenet.nature.com today! www.nature.com/articles/s41... We investigated the function of the cohesin accessory protein NIPBL, making two particularly interesting findings:

16.02.2026 18:32 👍 37 🔁 24 💬 1 📌 1

Just give it a billion years.

13.02.2026 09:36 👍 4 🔁 0 💬 0 📌 0

🧬 We are excited to announce the
INTERNATIONAL DUTCH EMBRYO MODEL MEETING 2026
— Engineering the Origins of Life

📅 7–8 May 2026
📍 Utrecht, The Netherlands

Register & submit abstracts:
www.oncodeinstitute.nl/internationa...

13.02.2026 09:05 👍 2 🔁 2 💬 1 📌 0

Interested in transcriptional regulation, enhancers and 3D genome folding?

In this new study we wondered about the role of cohesin loading at enhancers for long-range transcriptional control

www.biorxiv.org/content/10.6...

detailed 🧵👇

12.02.2026 21:39 👍 67 🔁 33 💬 1 📌 3

Cohesin-mediated chromatin organization controls the differentiation and function of dendritic cells Chromatin-organizing cohesin complex cooperates with transcription factor IRF8 to enable the functionality of dendritic cells in vivo.

One of the first in vivo demonstrations that cohesin loss in non-dividing cells can hit hard physiologically, impairing immune function of dendritic cells in mouse. Out in Science Immunology, major contributors: @nickadams-phd.bsky.social, Boris Reizis, Leonid Mirny www.science.org/doi/10.1126/...

09.02.2026 16:59 👍 9 🔁 3 💬 0 📌 0

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

03.02.2026 21:55 👍 35 🔁 18 💬 0 📌 0

SS18-SSX co-opts P300 to sustain oncogenic transcription independent of SWI/SNF activity Synovial sarcoma is driven by the SS18-SSX fusion oncoprotein, which has been assumed to promote tumorigenesis through its incorporation into the SWI/SNF chromatin remodeling complexes. Accordingly, therapeutic efforts have focused on targeting SS18-SSX containing SWI/SNF assemblies, yet these approaches have produced limited clinical benefit. Here, we demonstrate that SS18-SSX sustains oncogenic transcription independent of SWI/SNF activity. Despite efficient degradation and dismantling of SWI/SNF complexes, fusion occupancy at target loci and associated gene expression programs remain largely intact. Instead, we identify the acetyltransferase P300 as an essential co-factor supporting SS18-SSX chromatin binding and transcriptional activation. Targeting P300 displaces the fusion from chromatin, suppresses its transcriptional output, compromising synovial sarcoma viability. Notably, dual PROTAC mediated degradation of P300 and SWI/SNF produces strong synergistic effects, broadly disrupting SS18-SSX localization and function. These findings redefine the mechanistic basis of synovial sarcoma and reveal a mechanistically anchored therapeutic strategy for targeting its core oncogenic driver. ### Competing Interest Statement C.R.V. has been a consultant for Flare Therapeutics, Roivant Sciences and C4 Therapeutics; has served on the advisory boards of KSQ Therapeutics, Syros Pharmaceuticals and Treeline Biosciences; has received research funding from Boehringer Ingelheim and Treeline Biosciences; and owns stock in Treeline Biosciences. S.A.A. has been a consultant and/or shareholder for Neomorph, Imago Biosciences, Hyku Therapeutics, C4 Therapeutics, Accent Therapeutics and Nimbus Therapeutics; and has received research support from Janssen and Syndax. N.O.C. is a co-founder, shareholder and management consultant for PhenoTherapeutics Ltd; and a shareholder in Amplia Therapeutics Ltd All other authors declare no financial interests UKRI, EP/X039633/1 Worldwide Cancer Research, https://ror.org/031tfbz57, 21-0271 Science Foundation Ireland, https://ror.org/0271asj38, 18/SIRG/5573

Synovial sarcoma is driven almost exclusively by a single oncofusion – SS18-SSX

For years, the assumptions on disease mechanisms were simple:

➡️ SS18-SSX works by hijacking SWI/SNF chromatin remodeling activity

Our new study shows that assumption was wrong 🧵👇

www.biorxiv.org/content/10.6...

28.01.2026 09:54 👍 30 🔁 12 💬 2 📌 3

Full Professor and Chair Laboratory of Biophysics We are looking for a Full Professor in the Biophysics chair group, part of Wageningen University & Research (WUR)

www.wur.nl/en/vacancy/f...

Become our new colleague (and next door neighbor) and lead a chair/group/department of Biophysics at Wageningen University. Reach out to me for info and please spread!!!

28.01.2026 05:20 👍 23 🔁 48 💬 0 📌 0

CAD-C: An engineered nuclease enables repair-free in situ proximity ligation and nucleosome-resolution chromosome walks in human cells Chromosome conformation capture (3C)-derived methods have become an indispensable tool in the study of gene regulation. The three-dimensional contacts they are able to assay depend strongly on the properties of the enzyme used to fragment chromatin prior to proximity-driven ligation. Micrococcal nuclease (MNase), used in Micro-C, increases resolution at the expense of low ligation efficiency and the need for extensive enzyme titration. To overcome these limitations, we engineered a highly active, TEV protease-activatable caspase-activated DNase (CAD) to enable an efficient, low-sequence-bias, and high-resolution proximity ligation assay we call CAD-C. CAD-C was successful on the first attempt for each human cell line tested and the resulting datasets capture loops, TADs, compartments, and stripes similarly to Micro-C. However, compared to Micro-C and Hi-C, CAD-C shows enhanced sensitivity for promoter-enhancer loops. Leveraging the ligation-competent DNA ends produced by CAD cleavage, we show that CAD-C is compatible with a highly streamlined, repair-free protocol and produces multi-step CADwalks, consecutive ligations between nucleosomal or sub-nucleosomal fragments. With these walks, we probe local chromatin fiber folding contacts, nucleosomal and sub-nucleosomal footprints, and long-range nuclear organization regimes in human cell lines. CAD-C is an efficient, robust chromatin structure assay that can span sub-nucleosomal to chromosomal length scales in a single experiment. ### Competing Interest Statement V.I.R. and J.S. are inventors on a related patent application covering CAD-C (PCT application filed 2024). NIH Common Fund, https://ror.org/001d55x84, 1DP2GM150021 Irma T. Hirschl Trust, https://ror.org/01yaqvf46, Career Scientist Award Rita Allen Foundation, https://ror.org/0515k5w36, Scholar Award Stavros Niarchos Foundation, https://ror.org/0210rze73, Institute for Global Infectious Disease Research at Rockefeller University Grant Robertson Technology Development Fund at Rockefeller University Boehringer Ingelheim (Germany), https://ror.org/00q32j219, PhD Fellowship to JS U.S. National Science Foundation, https://ror.org/021nxhr62, GRFP to LAW International Human Frontier Science Program Organization, https://ror.org/02ebx7v45, Postdoctoral Cross-Disciplinary Fellowship to AO Natural Sciences and Engineering Research Council of Canada, Postgraduate fellowship to HC, Postgraduate fellowship to JLY

Excited to share my PhD work from @riscalab.bsky.social on @biorxivpreprint.bsky.social CAD-C & CADwalks –repair-free, nucleosome-resolution chromosome conformation capture with engineered TEVp-activatable CAD. CADwalks: chromosome walks of ligated CAD footprints. doi.org/10.64898/202...
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21.01.2026 19:32 👍 16 🔁 5 💬 1 📌 1

Very interesting!

24.01.2026 07:46 👍 0 🔁 0 💬 0 📌 0

Seeing into Hi-C: How our scientific connectivity revealed the close connections in our DNA to be a work of art Scientific data can be beautiful. An example where the data itself have a particularly striking appearance even before any scientific meaning has been ascribed

I had the privilege to meet artist Mary Griffiths. Mary got inspired by Hi-C maps and over zooms we spoke about Hi-C maps, patterns and drawings. Mary’s Hi-C inspired art has been exhibited eg the Royal Academy. We wrote this piece about this art-science collaboration

pubs.aip.org/aip/bpr/arti...

24.01.2026 00:50 👍 30 🔁 10 💬 1 📌 0

View from the hotel room

Poster session 2024, with Valentina Boeva, Constantin Ahlmann-Eltze and others

Wednesday afternoon hike incl. swim in the mountain river

Another view from the hotel room

Apply for the Ascona workshop "Statistical and AI methods for multi-modal multi-scale modeling of biological systems", 28 Jun-3 Jul 2026 on Monte Verità, Lago Maggiore at the foot of the Swiss Alps.

ascona2026.sciencesconf.org

15.01.2026 16:16 👍 21 🔁 16 💬 0 📌 3

And tangerine is mandarijn (mandarin).

14.01.2026 14:20 👍 2 🔁 0 💬 0 📌 0

Start your independent as an ELISIR fellow right after your PhD, in one of the most terrific places in Europe !

14.01.2026 13:12 👍 16 🔁 11 💬 0 📌 1

Job offer 2026.pdf

🧬 We’re #Hiring a #Bioinformatician/ Computational Biologist!
#Single-cell genomics, #Epigenomics & #3Dgenome biology in #Zebrafish #DevBio 🐟
📍 @cabd-upo-csic.bsky.social, CABD, Seville (Spain)
🕒 Full-time, 3-year position (start March 2026)
📅 Apply by Feb 15, 2026
👉 drive.google.com/file/d/1M8rp...

12.01.2026 15:57 👍 17 🔁 22 💬 1 📌 2

We’re hiring!
@jcellsci.bsky.social is looking for a Reviews Editor to join the team. This is a fantastic opportunity for someone who loves #cellbiology and wants to stay connected with the field. A great chance to work for an organisation that believes in helping the community!

Details below👇

09.01.2026 10:13 👍 29 🔁 42 💬 1 📌 0

International Genome Dynamics course in Institut Curie-Paris (April 8-15), experimental and computational methods in multiomics,with a #TE centered session.
Free registration, until Jan 15th
Don’t miss it!
👉https://training.institut-curie.org/courses/Genome-Dynamics-2026
@institutcurie.bsky.social

09.01.2026 10:54 👍 16 🔁 12 💬 1 📌 2

DDLS Research School Postdoc call 2026 Call for Academic and Industrial Postdoctoral Fellowships in Data-Driven Life Science 2026 Generic Description of the DDLS Postdoc Program The SciLifeLab and Wallenberg National Program for Data-Drive...

Planning to apply to the @scilifelab.se DDLS Research School Postdoc Call 2026?
Our lab will be happy to host prospective computational postdocs at @ki.se Karolinska Institutet / @scilifelab.se .
#Postdoc #ComputationalBiology #RNA #InfectionBiology #AntimicrobialResistance #Bioinformatics

08.01.2026 15:39 👍 6 🔁 3 💬 1 📌 0

Bella Chow, same thing.

08.01.2026 08:10 👍 1 🔁 0 💬 0 📌 0

The 5 stages of the ‘enshittification’ of academic publishing Academic publishing now shows the same decline that has hit social media and online marketplaces.

Reading “The 5 stages of the ‘enshittification’ of academic publishing”
theconversation.com/the-5-stages...

07.01.2026 09:32 👍 91 🔁 35 💬 2 📌 7

DNA sequence quantitatively encodes CTCF-binding affinity at genome scale https://www.biorxiv.org/content/10.64898/2026.01.05.696797v1

06.01.2026 07:31 👍 3 🔁 4 💬 0 📌 0

Elzo de Wit lab @ NKI

Latest posts by Elzo de Wit lab @ NKI @dewitlab