🔥The 9th Round of Easy Loan, Earn $40 Reward is in progress❗️ ⏰ Promotion Period: January 15th - Feburary 15th, 2025 👉 Register now and check more details at gate.io/campaigns/358

🎉 Excited to announce the 10th release & 20th-anniversary update of JASPAR JASPAR database , a leading resource in computational regulatory genomics! Important to note that JASPAR has a new URL: jaspar.elixir.no The manuscript can be found at academic.oup.com/nar/advance-ar…. 1/9

Exciting news! Our latest research on "Cell type directed design of synthetic enhancers" has been published in nature. We've harnessed deep learning to design enhancers with cell-type specificity. Find our paper here: nature.com/articles/s4158…. Highlights below: [1/n]

Happy to see the SUM-seq preprint out - our approach for scalable droplet-based single-cell ATAC+RNA (up to 1M cells, hundreds of samples)! 🧬 biorxiv.org/content/10.110…

Did you ever wonder how a cell decides its fate? We review how #repression builds critical guardrails in Waddington's landscape, guiding cells to their fate, and discuss how #safeguard repressors ensure that cells don't stray off-path. DKFZ Uni Heidelberg doi.org/10.1038/s44320…

Just uploaded a new version of the LEMUR manuscript biorxiv.org/content/10.110… 🎉🥳 LEMUR disentangles observed and latent factors of multi-condition single-cell data and finds groups of cells with consistent differential expression for each gene. Details on the changes ⬇️

Check out our study linking T cell signatures with allo-HCT outcome in AML patients out in @BloodJournal🩸 Big thanks to everyone involved, especially to dienstmüde ¯\_(ツ)_/¯ and my PhD supervisors Judith Zaugg @EMBL & C.Pabst Universitätsklinikum Heidelberg MMPU. 🧵(1/11) ashpublications.org/blood/article/…

The choice of whether to use Seurat or Scanpy for single-cell RNA-seq analysis typically comes down to a preference of R vs. Python. But do they produce the same results? In biorxiv.org/content/10.110… w/ Joseph Rich et al. we take a close look. The results are 👀 1/🧵

Thrilled to announce the largest long-read based SV resource on open samples (1kGP) to date. Highlights include a pangenome augmentation pipeline, sequence resolution of 74k insertions, fine-scale SV classification and evidence for recurrent SV formation. Great team effort:

Excited to share our first preprint with Judith Zaugg EMBL! We screened 1,296 transcription factors for repressors that block unwanted plasticity and found many putative tumour suppressors. PROX1 stands out as hepatocyte safeguard that prevents #livercancer. biorxiv.org/content/10.110…

Excited to share our new preprint on PROX1’s role in safeguarding hepatocyte fate and preventing #livercancer, from my second PhD project! Big thanks to Moritz Mall, Judith Zaugg, DKFZ, @EMBL, and a special shoutout to Bryce Lim for all I’ve learned. Grateful for this journey!

Moritz Mall Judith Zaugg EMBL Mathias Heikenwälder Tschaharganeh Lab vascular development lab Grimmlab Aryan Kamal Bryce Lim DKFZ Great to see this validation of #PROX1 repression of #plasticity that we found in #CRC, now in #livercancer. Shared PROX1 biology across GI cancers! nature.com/articles/s4158…

In a collaborative study, Group Leaders Judith Zaugg (EMBL) and Moritz Mall (DKFZ) identified a liver protein, called PROX1, that preserves cell identity and halts cancer formation in preclinical mouse models paving the way for new liver cancer therapies. embl.org/news/science-t…

Researchers from the Department of Biomedicine , the EMBL and the DKFZ  have uncovered a key mechanism regulating cell fate plasticity. In their groundbreaking study, Aryan Kamal from the Judith Zaugg group together with Bryce Lim from the Moritz Mall group identified safeguard

#CellPlasticity—the ability of cells to change their identity—is vital for tissue growth and repair. But when it goes unchecked, it can fuel #cancer. Our latest study examines how to block #LiverCancer by actively suppressing plasticity. nature.com/articles/s4158… #CancerBiology

Drs. Bryce Lim (Bryce Lim), Aryan Kamal, and Drs. Moritz Mall's and Judith Zaugg's (Judith Zaugg) teams discovered that #PROX1 can block #CellFate plasticity in #hepatocytes, preventing #LiverCancer in mice. 📃 Nature Genetics - go.nature.com/3D9AYuR 🎤 - bit.ly/4gK2Xz3

How cool is this? Michal Lipinski from Broad Institute presenting stacked #Illumina spatial slides of the mouse brain with subcellular transcriptome resolution #AGBTGM

Historic day for builders in bio: We’ve open-sourced Vevo Therapeutics’s #Tahoe100M, largest single-cell atlas ever—by a wide margin—as the inaugural contribution to Arc Institute’s Virtual Cell Atlas, ready for download today. A leap forward for AI models of cells & drug discovery. 🧵

1/9 New preprint out! 🍳 Our team at @EMBL, DKFZ, and Memorial Sloan Kettering Cancer Center built #segger—a fast, accurate cell segmentation tool for ST. It’s a transcript-to-cell link predictor that matches transcripts to their cell origins in a snap!

Having a stressful day? Lay back, crack a beer open and read about how chromatin accessibility responds to TF binding perturbations at the single molecule level bit.ly/3XQMFxN. I'm so grateful to my PhD mentors Arnaud Krebs and Judith Zaugg for these super productive years!!

Want to decode #cancer & #autism with organoids, stem cells & genomics? We’re hiring PhD students DKFZ via the fully funded International PhD Program! 🌍 Heidelberg 🔗 dkfz.de/en/career/inte… #PhDopportunity #CancerNeuroscience #Genomics