We are delighted to present DIA-NN 2.5. Redefining LC-MS proteomics with up to 70% more proteins identified and powerful capabilities for statistics, visualisation and biological interpretation.
Francis O'Reilly
@fjoreilly.bsky.social
Structural Systems Biology at NCI/NIH. Views are my own. #TeamMassSpec
Excited to share this collaborative work with Ward and Petrucelli Labs! We show that two major genetic risk factors for #neurodegeneration and cognitive decline converge on TMEM106B fibrils accumulating within lysosomes. A LOT of work packed in here 🧠🔬 Preprint: www.biorxiv.org/content/10.6...
We are running the cryo-ET image processing workshop again this year! Come learn everything tomo: STA, segmentation, heterogeneity analysis from @baradlab.com @williamnwan.bsky.social and others! Apply!
U-M Life Sciences Institute@umlifesciences.bsky.social · 7mo agoWhile everything feels flash-frozen in Michigan, it's a great time to plan for U-M's 2026 #CryoET Data Processing Workshop! This hands-on workshop will introduce participants to standard image processing packages used to analyze cryo-ET data. Apply by March 20: myumi.ch/lsi-cryo-wor...
Our latest cotranslational folding story is now published @cp-molcell.bsky.social. Really cool (I think) new ideas about how exactly the ribosome directs folding and assembly to make sure complicated proteins mature efficiently in cells. www.cell.com/molecular-ce...
The ribosome synchronizes folding and assembly to promote oligomeric protein biogenesis
Large oligomeric proteins constitute a major fraction of proteomes, but are difficult to refold in vitro, raising the question of how cells direct their biogenesis. Roeselová and Shivakumaraswamy et a...
cell.com
When RNA Degradation 🤝 meets 🤝 Protein Degradation! tinyurl.com/E3TDMD In a collaboration of @bartellab.bsky.social and Schulman lab, we show that, in target-directed microRNA degradation (TDMD), 2-RNA-factors recruit an E3 ligase and induce the degradation of not only a protein but also RNA (1/5).
ER-associated single-capped vaults are surprising and really cool!🤩 Some even contain ribosomes. Vault function is still mysterious but a role in protein quality control seems plausible. Also great to see Dicty in the #TeamTomo spotlight! #ProtistsOnSky @kgeissler.bsky.social @becklab.bsky.social 🧪
Katharina Geißler@kgeissler.bsky.social · 8mo agoIt’s out! Using cryo-ET in Dicty cells, we take a fresh in situ look at vaults. Surprisingly, we uncover vaults associated with ER and NE membranes, and find that many vaults enclose ribosomes in defined orientations, opening new avenues to their cellular function! www.biorxiv.org/lookup/conte...
How does messenger RNA (mRNA) get out of the nucleus to become a protein? Eukaryotic mRNA is packaged, exported, and then translated in the cytoplasm. But how do these steps work? And what are open questions? Check out our new review for our take: www.annualreviews.org/content/jour... (1/3)
This work is now officially published @natsmb.nature.com with some fun new analyses included in the revised version. Congratulations to all the authors! @connyyu.bsky.social @rappsilber.bsky.social @lrsinn.bsky.social @fjoreilly.bsky.social www.nature.com/articles/s41...
nature.com
Lori Passmore@lapassmore.bsky.social · 2y agoNew work from the lab! James Stowell led this project showing the importance of multivalency and phospho-regulation in mRNA decay. This has many parallels with other mechanisms in gene expression. biorxiv.org/cgi/content/...
We are excited to share our preprint describing DirectContacts2! Here we develop a machine learning model to discriminate between direct and indirect protein interactions. We use our model to construct a highly accurate wiring diagram of the human cell. www.biorxiv.org/content/10.1...
DirectContacts2: A network of direct physical protein interactions derived from high-throughput mass spectrometry experiments
Cellular function is driven by the activity proteins in stable complexes. Protein complex assembly depends on the direct physical association of component proteins. Advances in macromolecular structur...
biorxiv.org
‼️ Exciting new preprint from a close collaboration with Kylie Walters' group. Our study maps the binding sites of key regulators of the proteasome in situ. www.biorxiv.org/content/10.1...
Structures of dynamic interactors at native proteasomes by PhIX-MS and cryoelectron microscopy
Proteasome function depends on a network of transient interactions that remain structurally and functionally unresolved. We developed PhIX-MS (Photo-induced In situ Crosslinking-Mass Spectrometry), a ...
biorxiv.org
New preprint: In situ Architecture of #Plasmodesmata. Using #cryoET, #AlphaFold & proteomics, we uncover the native organization of plant intercellular nanopores. 🔗 doi.org/10.1101/2025... 🧪🧵1/n #teamtomo #PlantScience #Physcomitrium #Arabidopsis #cryoEM
A great lineup of speakers!
Symposium on Structural Proteomics 2025@ssp2025.bsky.social · last yr.Time to get signed up for the Symposium on Structural Proteomics! This time at @humantechnopole.bsky.social in Milan 6th-8th October Full speaker lineup announced. Thanks to @thermofishersci.bsky.social @brukercorporation.bsky.social, Affipro and MSVision for support Info ssp2025.squarespace.com
Time to get signed up for the next Symposium on Structural Proteomics! This time in beautiful Milan 6th-8th October. ssp2025.squarespace.com
Beautiful work from my friend @kiranrpatil.bsky.social . Gut bacteria can accumulate Forever chemicals and help us get rid of them! Happy we could contribute! www.nature.com/articles/s41...
Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances - Nature Microbiology
Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances (PFAS), commonly known as forever chemicals, in intracellular aggregates. Colonization of gnotobiotic mice with bioaccumulating bac...
nature.com
We have a 3-year funded postdoc position to work on structures of #amyloid filaments. If you are an expert in protein biochemistry, structural biology or #cryoEM / #cryoET, this could be for you! Feel free to email me with any questions. Come join us! 🤩 www.nature.com/naturecareer...
Postdoctoral Scientist - Structural Studies - Dr Sjors Scheres - LMB 2640 - Cambridgeshire job with MRC Laboratory of Molecular Biology (LMB) | 12840844
Postdoctoral Scientist Starting Salary: £41,344 Fixed term: 3 years MRC Laboratory of Molecular Biology, Cambridge, UK We are looking for a postdoc...
nature.com
🎉 Congratulations to Wolfgang Baumeister @maxplanck.de, awarded the 2025 #ShawPrize in Life Science & Medicine for pioneering work in cryo-ET! Learn more 👉 europa.eu/!JBXDBG #FrontierResearch #ERCSyG #CryoET #StructuralBiology #shawprize2025
ERC grantee wins the Shaw Prize in Life Science and Medicine
2025 Shaw Prize honours ERC-funded research in molecular imaging
europa.eu
We've updated our AFESM website to now include biome filtering, allowing exploration of protein structures adapted to specific environments. 🌐 afesm.foldseek.com Read more about the work in the skeetorial 🦋 bsky.app/profile/mart... or our preprint 📄 www.biorxiv.org/content/10.1...
Martin Steinegger 🇺🇦@martinsteinegger.bsky.social · last yr.AFESM: a metagenomic guide through the protein structure universe! We clustered 821M structures (AFDB&ESMatlas) into 5.12M groups; revealing biome-specific groups, only 1 new fold even after AlphaFold2 re-prediction & many novel domain combos. 🧵 🌐 afesm.foldseek.com 📄 www.biorxiv.org/content/10.1...
We are looking for a postdoctoral fellow to join us to explore telomerase regulation by histones. Please get in touch if this may interest you.
MRC Laboratory of Molecular Biology@mrclmb.ac.uk · last yr.Excellent opportunity available for a motivated #postdoc to join @kellythd-nguyen.bsky.social’s group investigating the roles of histones in regulating telomerase using a multi-disciplinary approach. More details: www.nature.com/naturecareer... Apply by 04 MAY #PostdocJobs #ScienceJobs
I’m excited to share my first paper in the Farnung lab, in which we report four cryo-EM structures of the human DNA replication machinery engaging with and progressing into a nucleosome.
Lucas Farnung@lucas.farnunglab.com · last yr.🔬 New from the Farnung Lab: We established a fully in vitro reconstituted chromatin replication system and report the first cryo-EM snapshots of the human replisome engaging nucleosomes. Brilliant work by @felixsteinruecke.bsky.social with support from @jonmarkert.bsky.social! tinyurl.com/replisome
One of our satellite-tagged Cuckoos has hitched a ride on a cruise ship and is now in the UK, the earliest one of our superstar Cuckoos has ever reached us! 😮🛥️🧵
The latest discovery from the lab and great colleagues at McMaster and U Illinois, Chicago. Lariocidin, a new lasso peptide antibiotic that inhibits the ribosome. rdcu.be/efdha
A broad-spectrum lasso peptide antibiotic targeting the bacterial ribosome
Nature - A new lasso peptide antibiotic exhibits broad-spectrum activity against Gram-negative and Gram-positive bacteria by interfering with bacterial protein synthesis, is unaffected by common...
rdcu.be
In a new Science study, cryo–electron tomography captures the in-cell architecture of the mitochondrial respiratory chain, illuminating how the coordinated action of molecular machines drives life’s fundamental energy conversion. Learn more in this week's issue: scim.ag/3FA3Ygq
“You see, that was funny because no one could imagine one banana costing $10.”
Happy retirement to Francis Collins, a scientific and administrative hero. He was always a strong advocate for the importance of biological research and the results are obvious and impressive.
Out of the lab, into the wild: when @pauligroup.bsky.social's Andi Pauli puts on her @ox.ac.uk blue, you know it's business time! Austria's national broadcast ORF interviewed her on how #Vienna has become such an amazing place for life science research.
Foldseek-Multimer—now published in @naturemethods.bsky.social—our fast multimer search tool, enables complex comparisons against the full PDB in seconds. It comes with BFMD, a collection of 300K+ predictions gathered from community projects. 📄 nature.com/articles/s41... 🌐 search.foldseek.com
Ever wondered how Pol II speed is controlled during productive elongation? Our study reveals that the helicase RECQL5 triggers transcription braking, while the transcription-coupled DNA repair complex restores the elongation rate. #cryoEM #transcription www.biorxiv.org/content/10.1...