New Tuesday (Oct 28) in Heidelberg and online: kick off event of the Center for Synthetic Genomics: program and link to zoom: www.syn-gen.de/kick-off

Beautiful mechanistic story, how QKI by bridging intronic motifs with U6 snRNA ensures inclusion of weak 5’ splice sites that are essential for building sarcomeres. Congrats @kurianlab.bsky.social and @evannostrandlab.bsky.social labs & all involved.

Kurianlab@kurianlab.bsky.social · 11mo ago

Many conserved exons in the heart and brain utilize weak 5 ′ splice sites, yet they are accurately spliced. But how? We show that splicing fidelity is actively enforced through a QKI-U6 checkpoint at the U1→U6 handover in essential cardiac genes during organogenesis. www.biorxiv.org/content/10.1...

New paper from the Trcek lab, with Siran Tian as the lead author - congratulations Siran!: www.nature.com/articles/s41...

Controlling intermolecular base pairing in Drosophila germ granules by mRNA folding and its implications in fly development - Nature Communications

Tian et al. show that RNA folding limits extensive base pairing among mRNAs in Drosophila germ granules. Instead, mRNAs interact via scattered bases exposed on the surface of folded RNAs, which may pr...

nature.com

Our paper is now out in final form at Nature Genetics! For those who missed the preprint, we used large-scale Perturb-seq targeting transcription factors to push primary fibroblasts into diverse transcriptional states, including those observed in cell atlas studies.

Explore RNA's role in epigenetics, DNA repair, transcription & genome organisation - directly with leaders from academia & industry at #GenReg26! Remaining talks to be filled from submissions - register & submit by 04 Sep 2025 to join us in Mexico. Speakers, details & registration➡️ bit.ly/46JQbze

I’m a bit late to the game here, but wanted to highlight this very clever technique from @paraspeckle.bsky.social’s group! Congrats to all authors!!

Miha Modic@paraspeckle.bsky.social · last yr.

New method drop: HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning. www.biorxiv.org/content/10.1...

A day late but STILL IMPORTANT

We are hiring! "Researcher in DNA-Based Information Processing Systems" (PhD or postdoc level). Co-supervision by Prof. Ralf Reussner (KIT computer science) and myself (biological systems). Combination of experiments and computational work. Please Apply / Repost! www.pse.kit.edu/english/karr...

Exited to see SPIDR finally coming out! Congrats to Marko and the team on opening the next multiplexing RNA frontier 💥

Dave Shechner@shechnerlab.bsky.social · last yr.

Woohoo! So psyched to see this awesome work from the Jovanovic lab out in the world! Congrats to all the authors on this tour-de-force! www.cell.com/cell/fulltex...

Thrilled to co-advertise this postdoc or PhD position with @erhardtlab.bsky.social! Join us, if RNP assembly on centromeres, RNA modifications, & bioinformatics are your thing. More info also on modiclab.org.

Sylvia Erhardt@erhardtlab.bsky.social · last yr.

🧪 Open PhD or Postdoc position 🧪 The project is in collaboration with my new collegue Miha Modic. If you are interesed in RNA modification, centromeres and bioinformatics this is for you! Miha has more positions to fill, infos on his linkedin: linkedin.com/in/miha-modic-9aa8a752.

New method drop: HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning. www.biorxiv.org/content/10.1...

Harnessing the physical properties of peptides to predict their functionality and interactions. 💥

Kurianlab@kurianlab.bsky.social · last yr.

www.science.org/doi/10.1126/...

Time for a short thread! We developed HiddenFoot, a biophysics-inspired approach to decode single-molecule footprinting data and infer TF, nucleosome, and RNA Pol II binding profiles on individual DNA molecules. One molecule at a time! www.biorxiv.org/content/10.1... 1/6

Thank you, Lennart! I'm very excited to join the newly founded Carl Zeiss Center for Synthetic Genomics and KIT with your lab nextdoor! Exciting times ahead!

Lennart Hilbert@lennarthilbert.bsky.social · last yr.

While it is hard to predict ahead of time *what* the actual discoveries will be that we will make together, it is relatively safe to assume *that* they will happen. Welcome new T-Track Prof. Miha Modic @paraspeckle.bsky.social to @kit.edu Karlsruhe I am so very excited to have you with us now!

I'm excited to share our latest publication on co-transcriptional RNA folding in a eukaryote! Great work by Leo Schärfen with collaboration from Isaac Vock and Matt Simon! @leoschaerfen.bsky.social @mattdsimon.bsky.social Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...

The eternal question: should you focus on one problem for a very long time or is it more productive to bounce and work on many problems? David Baker says that both modes have been important in his career trajectory. podcasts.apple.com/us/podcast/n... @nightsciencepod.bsky.social

📣 Our lab is looking for a PhD student to join us in exploring RNA biology! Details in the announcement. Feel free to reach out with any questions—and please RT!

Beautiful read from @gabrijelad.bsky.social, outlining what we today know and also have no clue about the exciting world of RNA localisation genomebiology.biomedcentral.com/articles/10....

Decoding subcellular RNA localization one molecule at a time - Genome Biology

Eukaryotic cells are highly structured and composed of multiple membrane-bound and membraneless organelles. Subcellular RNA localization is a critical regulator of RNA function, influencing various bi...

genomebiology.biomedcentral.com

Save the date for the next edition of this wonderful meeting. We look forward to seeing you in Portugal!!

"Imagine a DAPI-like stain, but for the extracellular matrix." That's basically how this work was pitched to me by Kayvon and Antonio a year or so ago. Now the final product really delivers. Read about their versatile label for ECM in living tissues here: www.nature.com/articles/s41...

I am thrilled to share the first manuscript from my group on identifying sequence and structural features promoting the condensation of RNAs that are organising highly interconnected RNA networks, thereby expanding our understanding of higher-order transcriptome assemblage. shorturl.at/pmLIj #RNASky

Integrative profiling of condensation-prone RNAs during early development

Complex RNA–protein networks play a pivotal role in the formation of many types of biomolecular condensates. How intrinsic RNA features contribute to condensate formation however remains unclear. Here...

biorxiv.org