Group leader @mpi-mg, Berlin
Chromatin tracing, epigenetics, development. Equity and advocacy in academia.
Dr. Sedona Murphy
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Excited to share a new preprint from the lab led by @lukekoblan.bsky.social and William Colgan in which we describe our efforts to define a quantitative cell fate map of mouse embryogenesis! www.biorxiv.org/content/10.6...
1/🧵 Can transcription factor condensate formation be explained without phase separation? Our new preprint introduces SPARK, a simulation tool that reproduces condensate behavior (clustering, fusion, FRAP) from diffusion & binding kinetics alone. Movie: 60 sec FRAP sim www.biorxiv.org/content/10.6...
Video
I am so happy to see our paper on spatial feature based analysis of chromatin states in print in Nature Communications. Here is an early access version of O-SNAP: www.nature.com/articles/s41...
Mir Lab
Maintaining transcriptome solubility constrains mRNA sequence composition
Exploring the propensity for self-association of the transcriptome via RNA–RNA interactions!
Amazing preprint by Marco Todisco, Christalyn Ausler and Ankur Jain.
www.biorxiv.org/content/10.1...
Have you ever wondered how chromatin states shape developmental trajectories? In our preprint, we address this question using single-cell nanoCUT&Tag, a method developed by Marek Bartosovic @mardzix.bsky.social, which simultaneously profiles active H3K27ac and repressive H3K27me3 in the same nucleus
Iron-rich immune cells within homing pigeons’ livers seem to give the birds their magnetic compass. https://scim.ag/4tYuK5r
📣 Preprint alert! We developed a method to analyze concurrent interactions between multiple chromatin regions at single alleles at sub-nucleosome resolution (multi-way Micro-Capture-C, mwMCC) & used this to study structural synergy within super-enhancers. 1/14
www.biorxiv.org/content/10.6...
Mitochondria tethered to the nucleus secure its energy supply
www.biorxiv.org
🚨 We discovered a new mode of Hox gene regulation in annelids! 🪱 A distal enhancer acts as a "global control region", lifting Hox genes from Polycomb repression. This is reminiscent of Hox gene control in vertebrates, but the two modes likely evolved convergently.
www.biorxiv.org/content/10.6...
New study identifies a surprising mechanism for sensing Earth’s magnetic field
Out now in Science! Our study challenges long-standing assumptions about transcription factor specificity in eukaryotes. Novel single-molecule measurements of TF behavior in living cells reveal an independence of locus-specific binding from DNA sequence recognition.🧵
www.science.org/doi/10.1126/...
How intrinsically disordered regions (IDRs) shape chromatin binding and nuclear organization of transcription factors (TFs) remains unclear. We used proximity-assisted photoactivation (PAPA), a single...
www.science.org
Changes in nuclear architecture during cell state transitions remain poorly understood. Here, the authors use O-SNAP, a framework to analyze SMLM images of chromatin, to reveal chromatin remodelling i...
