Happy to share our review of the past, recent, and future applications of synthetic genomics in studying the 3D functional organization of chromosomes, a set of approaches that are gaining momentum!
www.sciencedirect.com/science/arti...
A new study shows how different regulatory genetic elements control when a key developmental gene is active in the body.
The findings could explain subtle differences seen in patients with congenital limb malformations, for which the underlying disease mechanisms often remain unknown.
Data. A mouse model of glioblastoma leads to inevitable death within 50 days. Delivery of HSV+TK plus IL2, driven by a strong and specific synthetic superenhancer, allows almost all mice to survive even after nearly 150 days. From Fig5 of Koeber et al 2026
Just look at this graph (Fig 5A,B from Koeber et al).
Amazing.
Congratulations to the Pollard lab and all authors.
www.nature.com/articles/s41...
Deutschlandkarte mit Planungsorten von Gaskraftwerken, Bohrungen und Pipelines. Es finden sich vor allem in der Nordsee und in allen Teilen Westdeutschlands Planungen
Die Bundesregierung will geheimhalten, wo sie neue fossile Infrastruktur in Deutschland plant.
Wir schaffen Transparenz und zeigen, wo neue Kraftwerke, Bohrungen, Pipelines und Flüssiggas-Terminals entstehen sollen – und wie ihr dagegen aktiv werden könnt: fragdenstaat.de/aktionen/cli...
Dr. Alena van Bömmel, zuletzt Postdoc am MPIMG, Prof. Dr. Helene Kretzmer, zuletzt Gruppenleiterin „Computational Genomics“ am MPIMG, und Mara Steiger, Doktorandin (v. l.) - Copyright MPIMG
Meilenstein in der Neurochirurgie: Neue Methode ermöglicht personalisierte Präzisionschirurgie bei Hirntumoren
Forschende des Universitätsklinikums Schleswig-Holstein (UKSH), Campus Kiel, der Christian-Albrechts-Universität zu Kiel (CAU) un...
weiterlesen
Harvey Yang and I were fortunate to contribute polymer simulations to this paper from @nicholas-aboreden.bsky.social Zhao... Zhang, Blobel showing that most CRE loops can form de novo after mitosis without loop extrusion
www.nature.com/articles/s41...
Meet people @mpi-cbg.de and their younger selves!
At MPI-CBG, 500 curiousity-driven individuals, from over 50 countries & from the most diverse backgrounds, explore fundamental molecular and cellular processes underlying the formation of organs and organisms and their healthy maintenance. #thisiswho
New preprint @cxqiu.bsky.social @jshendure.bsky.social ! Can we learn regulatory grammars of human cell types — by training on mouse development and transferring across 241 mammalian genomes? Introducing STEAM & a whole-organism scATAC-seq atlas from E10 to birth.
www.biorxiv.org/content/10.6...
Want to know how histone marks regulate your favorite gene? Go single molecule with ChromSMF: integrated measure of chromatin accessibility and histone marks + DNA methylation, TF footprints and genotype for free! Very proud of @mpalamin.bsky.social ! @embl.org
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? ⬇️
🚨 Why can’t mammals regenerate limbs like frog tadpoles or salamanders?
In our new paper in @science.org , we show that species-specific oxygen sensing acts as a gatekeeper for initiating limb regeneration 🐭🐸
🔗 www.science.org/doi/10.1126/... #EvoDevo
Yeah - Congrats Adri!
The Programmable Genomics Lab at @umasschan.bsky.social
just officially launched our site!
We have a "simple" goal: to develop synthetic regulatory elements that target every cell type in every tissue, and control payload dosage/duration
Check it out!
programmable-genomics.github.io
I started Awesome Life Science Resources: a curated list of resources on work culture, career, and communication for life scientists. Built for PhD students, postdocs, and PIs.
Check it out:
github.com/jjfroehlich/...
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...
A digital CAPTCHA verification window titled "Select all squares with PIPES" against a plain white background. The window contains a 3×3 grid of numbered squares, mixing literal hardware, smoking pipes, and programming syntax.
These captchas just keep getting harder #rstats
And I'm very excited to share our latest work with you and discuss about the 3D genome. This will be cool - See you later!
sign up if you have the time!!
Our most recent work on the “function and evolution” of #nuclear-speckles is now online at Cell @cp-cell.bsky.social
doi.org/10.1016/j.ce...
Read the thread👇 for the highlights of our findings.
fully agree, maybe we even find brendan eventually 😂🤣
Participants of the meeting posing on a staircase looking fantastic.
Thanks to co-authors Charles C. Bell, Brendan R. Camellato,
M. Joaquina Delás, Daniel M. Ibrahim, and @michaeltmont.bsky.social
And also to all the participants of the 2024🤨 Company of Biologists meeting that inspired this.
huhu 👋 @joadelas.bsky.social and I were hiding in the comment section 😉
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!
This will be fun!
Rally looking forward to present our latest story next week and discuss long-range gene regulation form the promoter's point of view!
Betreiber kleiner Anlagen mit einer Kapazität von weniger als 25 Kilowatt müssen sich künftig selbst erst einen Abnehmer für ihren Strom suchen, ehe sie diesen ins Netz speisen dürfen. Bisher mussten die Netzbetreiber ihnen den Strom stets abnehmen.
Ah, das muss dieser berühmte Bürokratieabbau sein
www.spiegel.de/wirtschaft/u...
I had a lot of fun putting this together with @suminkim.bsky.social and @andersshansen.bsky.social! Glad to have had the chance to work on it!
This is absolutely awesome!
I had intended to post something about this new Google DeepMind paper that appeared yesterday in Nature, but the press coverage has added to what there is to say. So this is a long 🧵
www.nature.com/articles/s41...
I'd just add one further comment. I'm very keen to write about the work being done to unravel the complexities of gene regulation. As the whole premise of AlphaGenome implies, this is really where much of the action is in molecular biology, and is central to how we work. But...
AlphaGenome is out in @nature.com today along with model weights! 🧬
📄 Paper: www.nature.com/articles/s41...
💻 Weights: github.com/google-deepm...
Getting here wasn’t a straight path. We discussed the story behind the model, paper & API in the following roundtable: youtu.be/V8lhUqKqzUc
