Systematic cell-type resolved transcriptomes of 8 tissues in 8 lab and wild-derived mouse strains capture global and local expression variation www.cell.com/cell-genomic... @ucirvine.bsky.social

In 2012 the ENCODE project claimed that most of our genome 🧬 wasn't junk after all on the basis that most of it was active in some way 🧪 In response, @cryptogenomicon.bsky.social proposed the random genome project - even random DNA would be mostly active, he suggested 1/2 doi.org/10.1016/j.cu...

New post! There was a lot of innovation in medicine and biomedical research this year, and I've tried to summarize the biggest ones in this blogpost. Medical breakthroughs in 2025. Plus a serious note at the end. www.scientificdiscovery.dev/p/medical-br...

Neurologist Sarah Tabrizi is leading the clinical effort that generate the first gene therapy to treat Huntington’s disease. She’s part of Nature’s 10 for 2025. 🧪

Helping this mood is our latest now out in its final form! @irfankathiriya.bsky.social leading the teams with me. Thanks to the editors and reviewers (incl. @wythelab.bsky.social)for a pleasant and productive journey. More to come when the full issue is out. www.nature.com/articles/s44...

"We also find that approximately half of researchers never publish in a venue with an impact factor above 15, which, under journal-level evaluation regimes, may exclude them from consideration for opportunities. Many of these researchers publish equally influential work"

"Results from experiments with N = 4 or less are shown to be highly misleading (...). For a cut-off of 2-fold expression differences, we find an N of 6-7 mice is required to consistently decrease the false positive rate to below 50%, and the detection sensitivity to above 50%"

"A mathematical model is a logical machine for converting assumptions into conclusions. If the model is correct and we believe its assumptions then we must, as a matter of logic, believe its conclusions. " link.springer.com/article/10.1...

Love this paper from @evahoermanseder.bsky.social and team; great to see it out. This is definitely "epigenetics" by any definition, but I wonder if it's premarking for activation or protecting against stable silence (i.e, DNAme), similar to Dppa2/4 targets in mammals www.nature.com/articles/s41...

Read our new preprint where we uncover a hierarchy in human PIC assembly and establish a quantitative framework that connects factor exchange kinetics to the regulation of Pol II activity in living human cells. doi: doi.org/10.64898/202... By A. Oravecz and our collaborators @molinalab.bsky.social

⏪ G&D RECAP ⏪ 🗓️ September 2025 RESEARCH PAPER: Bystander activation across a #TAD boundary supports a cohesin-dependent #transcription cluster model for #enhancer function By Williamson et al., Wendy Bickmore, and Laura Lettice ➡️ https://genesdev.cshlp.org/content/39/17-18/1012.full Wendy Bickmore

#tidyplots dark mode coming soon 🦇 #rstats #dataviz #phd

Cell-surface RNA forms ternary complex with RNA-binding proteins and heparan sulfate to recruit immune receptors

A twice-weekly cocktail of three messenger RNAs can rejuvenate the weary immune systems of aged mice and boost responses to vaccination and cancer treatments go.nature.com/497jGuw

🤯

A Perspective reviews recent and emerging developments in building multimodal foundation transformer models in genomics. www.nature.com/articles/s41...

"We find that while TAD boundaries pair more frequently than non-boundary regions, these interactions are infrequent and are uncorrelated with transcriptional activity of genes within the TAD. (...) These results suggest that TAD boundary architecture and gene activity are largely uncoupled"

It was a pleasure to write this News & Views article for the 4D Nucleome flagship article: www.nature.com/articles/d41... With great editorial support from @hollyasmith.bsky.social! Read the 4D Nucleome paper here: www.nature.com/articles/s41...

Submitting a grant you’re not eligible to get

Systematic maps reveal how human chromosomes are organized @nature.com @jobdekker.bsky.social @umasschan.bsky.social @hhmi-science.bsky.social @marionicodemi.bsky.social @creminslab.bsky.social @gladstoneinst.bsky.social www.nature.com/articles/s41... www.nature.com/articles/d41...

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.

A Method to Watch: Understanding enhancer logic through synthetic design www.nature.com/articles/s41...

A Method to Watch: Predicting RNA structures www.nature.com/articles/s41...

Second: DRACO v1.3 is out! Greatly improved algorithm for increased sensitivity and accuracy in the reconstruction of #RNA conformation reactivity profiles. The biggest improvement: replicate support (for more information, check the documentation: shorturl.at/zY3nu). Check it out: lnkd.in/gBhpnisG

As it's almost Christmas, here're 2 presents from the lab! 🎄 First: #RNA Framework 2.9.5 is out! Several additions, fixes and improvements. Check it out: lnkd.in/gi3QDNeq & see the CHANGELOG (shorturl.at/Lcobs) for the details! (1/n)

Congratulations from Dresden!!!

gift article: www.nytimes.com/2025/12/10/s...

Our review on Integrative modelling of biomolecular dynamics 💃 is now live at COSB We discuss approaches to integrate computational methods with time-dependent & time-resolved experiments to study protein dynamics With @dariagusew.bsky.social & Carl G. Henning Hansen doi.org/10.1016/j.sb...

Are you ready for the 17th edition of 'Transcription and chromatin'? Our conference remains a must-attend event for anyone engaged in the forefront of transcription research and we hope you can join us! 🧬 25 – 28 August 2026 Submit your abstract by 25 May: s.embl.org/trm26-01-bl #EMBLTranscript

RESEARCH PAPER: Multiple human enhancer RNAs contain long translated open reading frames By Vlasov et al. and James Manley ➡️ https://genesdev.cshlp.org/content/39/23-24/1468.full #protein #translation #enhancerRNA #openreadingframe #chromatin #DNAdamage #RNAprocessing #nucleus

🤯🤯

Super cool story - viruses keep translation up by preventing mRNA circularisation! www.nature.com/articles/s41...

This time is going to be legendary. If you know you know! Don’t miss it!!

Nature research paper: Architecture of the neutrophil compartment go.nature.com/4oD2Nh5

@science.org 🧬🔬 Multiscale structure of #chromatin condensates explains phase separation and material properties | Science www.science.org/doi/10.1126/... @janhuemar.bsky.social et al.

Daaamn! Really cool!

Very insightful review by the group of Alexander Deiters in @rscchembio.rsc.org. They give an overview of the development of covalent #aptamers for protein labeling and inhibition including an overview of the chemistries used. doi.org/10.1039/d5cb...#aptamers#ChemSky #ChemBio #NucleicAcids #RNA #DNA

Still a couple of weeks to apply for a fully funded PhD position in #AI and #RNA biology!!!

The #MBioSys25 keynote lectures by Prof Caroline Dean (@johninnescentre.bsky.social) and Prof @elowitzlab.bsky.social (Caltech) are now online! Watch (or revisit!) these two inspiring talks on gene regulation & functional genomics, available for free on our channel www.youtube.com/@MolecularBi...

How to keep in step when your (protein) partner speeds up… Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection. Congrats to whole team! www.science.org/doi/10.1126/...

ONLINE NOW: Predicting healthspan and disease risks through biological age

www.nature.com/articles/s41... Progressive coevolution of the yeast centromere and kinetochore 🤩 @helsenjana.bsky.social @gautamdey.bsky.social

Bah, who needs cohesin if you're at the right place (near). Grover once taught us the difference between near and far (my favourite Sesame Street piece), and now amazing work from @elphegenoralab.bsky.social led by @karissalhansen.bsky.social shows us how: www.science.org/doi/10.1126/...

Anthony A. Hyman will become EMBL’s next Director General. He joins EMBL from @mpi-cbg.de in Dresden. He is also Professor of Molecular Biology @tudresden.bsky.social, and was a group leader at EMBL Heidelberg from 1993 to 1999. www.embl.org/news/people-...

🔔Join us next Wednesday for #FragileNucleosome! 2 fantastic talks on chromatin regulation:🔬 @mariamafau.bsky.social on ZIC2's dual role in neural induction 🔬 @jhenninger.bsky.social on how RNA-binding proteins drive transcription 📋Register here for the entire series: us06web.zoom.us/webinar/regi...

"In particular, we show that, if it is true that some degree of talent is necessary to be successful in life, almost never the most talented people reach the highest peaks of success, being overtaken by mediocre but sensibly luckier individuals" arxiv.org/abs/1802.07068

The scientific world would be a better place if reviews routinely reflected this degree of critical thinking and graphical excellence. Thanks for putting this together @plaschkalab.bsky.social @rupertfaraway.bsky.social and @thezenklusen.bsky.social