RNA-seq tells us how much RNA is present in the cell. But to understand gene regulation, we need to easily measure the synthesis and decay rates driving this abundance. We introduce AIR-seq: analog intrinsic recoding sequencing. (1/6) www.biorxiv.org/content/10.6...

Analog intrinsic recoding measures RNA dynamics without chemical conversion

Steady-state RNA abundance measurements mask the synthesis and decay rates that shape gene expression. Analog intrinsic recoding sequencing (AIR-seq) repurposes the base-pairing properties of N4-hydro...

biorxiv.org

Excited to share that our paper is out in @natneuro.nature.com, presenting a multi-omic atlas and high-throughput morphogen screen of human organoids modeling the posterior brain! 🧠 nature.com/articles/s41... @zhisonghe.bsky.social @hsiuchuanlin.bsky.social @TreutleinLab @graycamplab.bsky.social

🧠 Scientists from the lab of #BarbaraTreutlein | @ethz.ch and colleagues from @unibas.ch and #UniversityCopenhagen created the most detailed picture yet of how early human #brain tissue responds to the chemical signals that guide brain development👇🏽 u.ethz.ch/5xOuT

NEXT TUE: DDD seminar, Jan. 27, 2025 @ 1PM Eastern US: Nadezhda Azbukina @nazbukina.bsky.social (from Dr. Barbara Treutlein's group) will speak on "A systematic study of morphogen patterning and its reproducibility in human neural organoids". carlocolantuoni.org/seminar

‪Happy to contribute to the Research Briefing featuring our latest study of human neural organoid patterning using morphogens. @fatimasnc.bsky.social TreutleinLab & @graycamplab.bsky.social @bsse.ethz.ch & IHB

Nature Methods@natmethods.nature.com · 9mo ago

For a quick summary, read the Research Briefing here: www.nature.com/articles/s41...

Check out our latest work on systematic morphogen patterning of neural organoids from Treutlein Lab and @graycamplab.bsky.social

@fatimasnc.bsky.social · 9mo ago

Your new batch of cortical organoids resulted in mixed regional identities closer to hindbrain. Why is patterning so hard?😩 ✨Our latest paper might help you✨ tinyurl.com/neorgpat #morphogen #neuralorganoids #patterning #scRNAseq @graycamplab.bsky.social @ethz.ch @nazbukina.bsky.social

We are searching for computational PhDs and Postdocs to join our group in collaboration with Barbara Treutlein's Lab. We have exciting single-cell technology projects that incorporate bioengineering, computation, biology, translation. Send CV to deco_ihb@roche.com

My postdoc work at Treutlein lab and @graycamplab.bsky.social with @jasperjanssens.bsky.social is out in @science.org ! We screen for neuron subtypes using pro-neural TFs + morphogen combinations + scRNA-seq and profiled over 700,000 cells in 480 conditions. www.science.org/doi/10.1126/...

Yay, we built a thing! With @dominik1klein.bsky.social Daniil, Aviv Regev, Barbara Treutlein @graycamplab.bsky.social @fabiantheis.bsky.social we use flow matching to enable generalised sc phenotype modeling. From cytokine screens to fate programming and organoid engineering tinyurl.com/3xhju7db

CellFlow enables generative single-cell phenotype modeling with flow matching

High-content phenotypic screens provide a powerful strategy for studying biological systems, but the scale of possible perturbations and cell states makes exhaustive experiments unfeasible. Computatio...

biorxiv.org

Happy to share our resource for blood vessel organoids! @zhisonghe.bsky.social, Makiko Seimiya, Gustav Jonsson, Wuji Cao, Ryo Okuda, Reiner Wimmer, Ryoko Okamoto Barbara Treutlein, @graycamplab.bsky.social, @penningerlab.bsky.social

Cell - a Cell Press journal@cp-cell.bsky.social · last yr.

Now online! Fate and state transitions during human blood vessel organoid development

Excited to share our latest preprint, presenting a multi-omic human neural organoid cell atlas of the posterior brain! 🧠🔬 doi.org/10.1101/2025... Great work with @hsiuchuanlin.bsky.social @zhisonghe.bsky.social @graycamplab.bsky.social and Barbara Treutlein!