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Gregor Diensthuber

@gdiensthuber.bsky.social

PhD student @NovoaLab @CRGenomica |Wet-Lab 🔁 Dry-Lab | RNA modifications | Method Development 🧬⚒

28 Posts162 Follower300 Folgt
Eva Maria Novoa@evamarianovoa.bsky.social · 2mo ago

Need to #multiplex your #nanopore direct RNA runs? We are happy to announce an upgraded version of #SeqTagger #version2 with demuxing models for #mRNA (compatible with polyadenylated #rRNA) and #tRNA. Code and models publicly available in GitHub! github.com/novoalab/Seq...

GitHub - novoalab/SeqTagger: Super-fast and accurate demultiplexing of direct RNA-seq runs (Pryszcz*, Diensthuber*, et al., Genome Res 2025)

Super-fast and accurate demultiplexing of direct RNA-seq runs (Pryszcz*, Diensthuber*, et al., Genome Res 2025) - novoalab/SeqTagger

github.com

Gregor Diensthuber@gdiensthuber.bsky.social · 12mo ago

Awesome place to do a PhD with exciting labs, a truly supportive PhD community, and the most scenic morning views you can imagine! 🌅 10/10

Centre de Regulació Genòmica (CRG)@crg.eu · 12mo ago

Are you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you. More info: www.crg.eu/en/content/t...

Ferriol Calvet@ferriol.bsky.social · last yr.

Very excited to share our new paper on the influence of biological sex and smoking in the clonal landscape of normal human bladder, just published in Nature. A big thank you and congrats to all the authors, specially to @raquelbmi.bsky.social for all the shared efforts in this journey! ⬇️More info⬇️

Nuria Lopez-Bigas@nlbigas.bsky.social · last yr.

🚨 New paper alert! Sex and smoking bias in the selection of somatic mutations in human bladder www.nature.com/articles/s41... by @raquelbmi.bsky.social, @ferriol.bsky.social et al (in collaboration with Rosana Risques lab in @uwmedicine.bsky.social)

TanentzapfLab@tanentzapflab.bsky.social · last yr.

The goal of a PhD is not to learn some facts or read a few papers or learn a bunch of techniques. The goal of a PhD is to learn independence, problem solving, how to finish things you start, resilience, & gain the ability to adapt & think creatively. Learning these things is hard.

@paveltomancak.bsky.social · last yr.

Looks like private funders, HHMI,CZI etc., are not going to “save” US research. Europe is setting up mechanisms to attract US researchers & it may work. But, common, target junior talent, don’t shower money on superstars who will be flying professors & return to US when the science winter passes.

Gregor Diensthuber@gdiensthuber.bsky.social · last yr.

🚨 New preprint alert 🚨 We systematically benchmarked @nanoporetech.com 's modification-aware basecalling models released for RNA on sets of in vitro and in vivo sequences and made some curious observations 🧬🔍. bit.ly/4lXqNul Follow along for a little recap (1/12)

Systematic benchmarking of basecalling models for RNA modification detection with highly multiplexed nanopore sequencing

Nanopore direct RNA sequencing (DRS) holds promise for advancing our understanding of the epitranscriptome by detecting RNA modifications in native RNA molecules. Recently, Oxford Nanopore Technologie...

bit.ly

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

Now online! Pseudouridine RNA avoids immune detection through impaired endolysosomal processing and TLR engagement

Pseudouridine RNA avoids immune detection through impaired endolysosomal processing and TLR engagement

Toll-like receptors (TLRs) 7 and 8 detect RNA degradation products to sense infection. However, modified nucleosides common in self-RNA—most notably pseudouridine—evade recognition. This study finds that poor nuclease processing and selective TLR avoidance drive this evasion, offering insight into the molecular basis of immune tolerance to pseudouridine-containing RNA.

dlvr.it

Sebastiaan van Heesch@sebastiaanvheesch.bsky.social · last yr.

### PhD position alert ### Please repost! I'm excited to announce a new *PhD position* within our group. We are looking for a super-motivated candidate with a solid basis in wet- and dry-lab research. Apply now & make sure to include all docs! werkenbijprinsesmaximacentrum.nl/en/vacancy/p...

PhD Position: Unraveling the Dark Proteome in Pediatric Cancer - Werken bij Prinses Maxima Centrum

Background For decades, vast stretches of the genome were dismissed as non-functional ‘junk’. However, our group and others have revealed that these regions harbor numerous non-canonical open reading ...

werkenbijprinsesmaximacentrum.nl

Carolyn Bertozzi@carolynbertozzi.bskyverified.social · last yr.

Check it out - amazing new work by @raflynn5.bsky.social and Kostas Tzelepis labs, discovery of a cell surface RNA/glycoRNA binding protein that is also a cancer antigen, new target for antibody therapy! www.nature.com/articles/s41...

Treatment of acute myeloid leukemia models by targeting a cell surface RNA-binding protein - Nature Biotechnology

An RNA-binding protein on leukemia cells provides an effective target in mouse models.

nature.com

Frances Yap@ribo1214.bsky.social · 2y ago

rRNA fingerprinting by Nanopore sequencing reveals cell type biosignatures. 🧪 #RNASky www.cell.com/molecular-ce...

Epitranscriptomic rRNA fingerprinting reveals tissue-of-origin and tumor-specific signatures

Milenkovic et al. demonstrate that rRNA modifications are differentially modified across tissues, developmental stages, and in disease. The authors show that rRNA modification patterns, also termed “epitranscriptomic rRNA fingerprints,” are sufficient to accurately identify tissue of origin and tumorigenicity, from as few as 250 reads.

cell.com

Gregor Diensthuber@gdiensthuber.bsky.social · 2y ago

Elegant work from the labmate #IvanMilenkovic showing that 'epitranscriptomic fingerprints' of highly modified rRNAs can classify tissues / dev. stages / cell types and even health/disease status! #notstatic www.cell.com/molecular-ce...

Epitranscriptomic rRNA fingerprinting reveals tissue-of-origin and tumor-specific signatures

Milenkovic et al. demonstrate that rRNA modifications are differentially modified across tissues, developmental stages, and in disease. The authors show that rRNA modification patterns, also termed “epitranscriptomic rRNA fingerprints,” are sufficient to accurately identify tissue of origin and tumorigenicity, from as few as 250 reads.

cell.com

David Eccles 🌻🇵🇸7x🩹🛡️@gringene.org · 2y ago

New paper from Eva Maria Novoa's lab, demonstrating how barcoded direct RNA reads can be demultiplexed on #nanopore github.com/novoalab/Seq... www.biorxiv.org/content/10.1...

SeqTagger, a rapid and accurate tool to demultiplex direct RNA nanopore sequencing datasets

Nanopore direct RNA sequencing (DRS) enables direct measurement of RNA molecules, including their native RNA modifications, without prior conversion to cDNA. However, commercial methods for molecular ...

biorxiv.org