Zehn Exzellenzstandorte werden weitergefördert. Das haben Wissenschaftsrat und @dfg.de gemeinsam mit Bundesforschungsministerin Dorothee Bär und Niedersachsens Wissenschaftsminister Falko Mohrs verkündet.
Pressemitteilung: www.wissenschaftsrat.de/DE/Home/Bueh...
#Exzellenzstrategie #ExStra
Please check out our new preprint! Using single cell analysis paired with HCR to visualize transcript localization we have identified cell and tissue-specific expression of various genes encoding tubulins, kifs, and dyneins during neural crest development!
Happy 🥲
We're now looking for a postdoc and a technician to work on this super exciting 5 years project on mRNA mtabolism and poly(A) tail length control.
Links to apply here:
Postdoc: careers.humantechnopole.it/job/Postdoc-...
Technician: careers.humantechnopole.it/job/Technici...
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/...
Thank you! Happy for any feedback and suggestions (also via DM)!
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/...
I'm really excited about this meeting on epigenetic editing!
Three more weeks to apply and join us in Barcelona!
Help us understanding how oocytes regulate proteostasis and fertility!
Find here more detailed information on the call:
recruitment.crg.eu/content/jobs...
Please spread around your communities!
Exciting results! We developed a single, generalizable ML model that can predict chromatin accessibility across any arbitrary cell type using a sample intrinsic and portable embedding. Notably works on samples generated over a 15 yr time interval with different technologies & methodologies.
GeneExt: a gene model extension tool for enhanced single-cell RNA-seq analysis academic.oup.com/bioinformati... 🧬💻🧪 github.com/sebepedrosla...
Just got my first @plasmidsaurus.bsky.social RNASeq data back and am genuinely blown away🤯 Incredibly easy process, and high-quality data back within 7 days, even from here in the UK!
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.
🚀 We're looking for people to join Malva! 🧬 @danilexn.bsky.social
Malva is the first search engine for single-cell genomics: we process massive amounts of sequencing data to enable ultrafast analysis of millions of cells.
(1/4)
I’m thrilled to share that my PhD work has been just published in Cell. After a long and bumpy ride, we uncovered the core function of nuclear speckles -splicing of GC-levelled exons- and traced the evolution of this gene architecture and condensates themselves to amniotes.
🧠 How do brain organoids help researchers study the earliest stages of Alzheimer’s disease?
#mdcBerlin's Agnieszka Rybak-Wolf explains what drives her and how advanced brain organoid models help her team explore how the disease may be initiated.
🔗 Full article: www.mdc-berlin.de/news/news/ag...
It’s a lonely job, leading a research group (professor, principal investigator, group leader – whatever you call it). You talk all day with everyone, but you’re mostly alone with the doubts and risks of the biggest decisions.
Does it have to be though??
podcasts.apple.com/us/podcast/n...
Does the noncoding genome actually carry more genetic information than coding seqs? Motivated by this question we mutated every bp in the 10kb MYC locus. Results are even more exciting: Decoding the MYC locus reveals a druggable ultraconserved RNA element www.biorxiv.org/content/10.6...
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
We wrote a protocol article detailing induction of dormancy in stem cells, embryos, and blastoids. We hope that it is useful to the community. As usual fun to work with @nicolasrivron.bsky.social, Heidar and Dhanur.
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!
⚠️ The final work of two former PhD students Till @tschwammle.bsky.social and Verena @verenamutzel.bsky.social is out!
➡️⬅️ They dissect how memory can arise from antisense transcription using mathematical modelling 💻, genomics 🧬 and synthetic biology ⚒️! link.springer.com/article/10.1...
New preprint on technologies to scale up CRISPR screens.
We use them to map 665,856 pairwise genetic perturbations and outline a path to comprehensive interaction mapping in human cells.
We also introduce an approach for cloning lentiviral libraries with billions of elements.
How can we identify circRNAs that might be functional?
Together with @jengreitz.bsky.social, Howard Chang, and team, we found that answering this question is much more challenging than previously thought!
academic.oup.com/nar/article/...
See thread below:
Figure showing four panels. Top left: TF-MNDI logo (pink background and yellow letters), showing the text: "Transcription Factor Motif Instance Neighborhood Decomposition and Interpretation". Top right: TF-MINDI workflow. 1. seqlets are called (showing nucleotide level contribution scores and seqlets as blocks of nucleotides with high contribution). 2. Seqlets are embedded (showing, for each seqlet, a representation of a vector as a heatmap) and 3 seqlets are clustered and annotated (showing a schematic representation of a dimensionality reduction with seqlets colored based on TF-families as well as TF binding motif logos). Bottom left, tSNE dimensionality reduction of organoid seqlets colored based on TF family. Bottom right, similar tSNE dimensionality reduction for embryo seqlets.
To obtain high dimensional embeddings of S2F identified motifs, annotate TFBS across cell-type specific peaks and model TFBS co-occurrences we developed a new python package named TF-MINDI. Resulting in > 400k annotated TFBS instances across the genome (each dot in the tSNE below is one instance).
Our preprint "Predictive design of tissue-specific mammalian enhancers that function in vivo in the mouse embryo" is on bioRxiv: www.biorxiv.org/content/10.6... . Amazing collaboration by @shenzhichen1999.bsky.social, Vincent Loubiere (@impvienna.bsky.social,@viennabiocenter.bsky.social),... (1/2)
1/ Thrilled to share our DNA-Diffusion paper, co-led by Lucas Ferreira and @ssenan.bsky.social is now out in @NatureGenet! New experimental results: STARR-Seq validation across 3 cell types (episomal) and EXTRA-Seq for endogenous activation of AXIN2, a leukemia protective gene! x.com/lucapinello/...
Designing synthetic regulatory elements using the generative AI framework DNA-Diffusion www.nature.com/articles/s41... 🧬🖥️🧪 github.com/pinellolab/D... (noncommercial)
Very happy to share our paper rdcu.be/eUImj out today in @natcellbio.nature.com 🎉🎉🎉
We uncover an unexpected role for endogenous Xist RNA in regulating X-linked genes that escape X-inactivation.
Come do your PhD with @stemundi.bsky.social and me to uncover mechanisms of lncRNA function using cutting-edge techniques in vivo! 🧬 Project and application details below 👇
I wrote a guide on constructive peer review. This is a polished version of an internal guide I had for my group. Of course, constructive feedback is welcome, peers!
deboer.bme.ubc.ca/2025/12/09/g...
