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proteincapsid.bsky.social
Postdoc at STRUBI. Using cryo-EM to see viruses better.
10 posts 382 followers 195 following
Prolific Poster

Injecting arbitrary experimental data into AlphaFold has been a missing feature. With high-throughput crystallography yielding 1000s of structures/year (@covid_moonshot) & cryoET making 😍 but low-res in situ models, it's also become a necessary one for scaling up structural biology. Hence ROCKET👇!

I don't want to brag (mostly because I had nothing to do with it), but that's a really cool #npjViruses Review with everything you wanted to know about #giantviruses: www.nature.com/articles/s44... #virus

I’ll have more to say about this later, but please have a look, and I hope the #TeamTomo community finds good uses for these 1829 Chlamy tomograms and annotations 🧪🧶🧬🌾🔬

Check out the magnificent #baculovirus structure! The unique virion architecture and structural atlas of hallmark proteins place baculo-like viruses into a separate new realm. Many insights into baculo biology and evolution. Collab with the group of Fasséli Coulibaly. www.science.org/doi/10.1126/...

#TeamTomo #SciArt 🧪

1/ A new series of #CryoSPARC tutorial videos from this year’s S2C2 #cryoEM image processing workshop are now online! These videos will be interesting to all users and especially those newer to #cryoEM. www.youtube.com/playlist?lis...

Excited to share our work describing a series of structures that allow us to propose a new model for Hantavirus genome replication by the viral L-protein. Another great experience with @loiccarrique.bsky.social @ben-nilsson-payant.bsky.social @efodor.bsky.social Jon Grimes. doi.org/10.1371/jour...

Gotta love finding soccer balls in tomograms ⚽ 😂

I am about to be recruiting two post-docs to work on cryoEM and cryoET of amyloid aggregates... Anyone interested please drop me a line while the wheels of our HR department turn.............

Here is a starter pack for CryoEM/ET enthousiasts To be completed go.bsky.app/JmQksC

Starter packs are great for a maximally twitter-like experience, but I've been really into feeds, which let me sort by content rather than by specific people. Here's one for #teamtomo bsky.app/profile/did:...

My half-hearted attempt to start a structural virology starter pack. Could be useful for conference organisation in the future! 😀 go.bsky.app/Qxv95BL Comment below if you'd like me to add you, or anyone you recommend! #virology #cryoEM

STOPGAP, an open-source package for subtomogram averaging, is presented together with detailed descriptions of the image-processing algorithms that it uses #STOPGAP #CryoET #OpenSource t.co/jXgHHu6GMD

From @efodor.bsky.social www.nature.com/articles/s41... Beautiful structures explaining the story behind some mutations which are relevant at the moment for cow flu. Also, nice to see that subtle differences between the FluC and FluA structures determine which mutations make a difference.

Our latest preprint describes a set of mutations that can be used on (in principle) any Fab to make it much more rigid. Postdoc Jennifer Kung's results demonstrate that such #rigidFabs can enable #cryoEM of small (~25kD) targets at good spatial resolutions (~2.7 Å).

Disulfide constrained Fabs overcome target size limitation for high-resolution single-particle cryo-EM https://www.biorxiv.org/content/10.1101/2024.05.10.593593v1

#cryoET benchmarking study of cellular FIB-SEM lamellae, by Maarten Tuijtel and colleagues at MPIBP, out now ❄️🔬 www.science.org/doi/10.1126/...

Next up in our Software Webinar Series: Björn Forsberg, Postdoctoral Fellow, Karolinska Institutet on OccuPy a tool for estimating local scaling of cryo-EM maps & approximate relative occupancy/resolution Tues, February 13, 2024 - 12:00pm EST Register here for the series: sbgrid.org/webinars/

Excited to share our first preprint of 2024!🎉 In astroviruses, the N-terminal domain of nonstructural protein drives the formation of replication complexes in tight association with perinuclear ER membranes. Great work by Hashim and colleagues!

Excited to share our first preprint of 2024! 🎉 researchsquare.com/article/rs-3... This study focuses on PDCoV, an emerging enteric pathogen. We generated anti-spike mAbs & investigated their inhibitory mechanisms using structural & functional studies. #virology #cryoEM

Hear hear!

After a week of unpleasant headbanging, a satisfactory win...

blik: an extensible napari plugin for cryo-ET data visualisation, annotation and analysis https://www.biorxiv.org/content/10.1101/2023.12.05.570263v1

We are hiring a virology postdoc to work as part of a large consortium, called PanViPrep, funded by the European Commission. If you are interested in antiviral drug development, or know someone who is, check out the link below! 👇 www.uu.nl/organisatie/...

The lab is offering a BBSRC-funded CASE PhD studentship 'Expanding single-cell proteomics into single-cell multi-omics' through the NLD_BBSRCDTP. Application on FindAPhD soon! You will be based in the c4pr_liv with me, collaborating with Cellenion and SwanseaUni.

Influenza virus RNA genome segments undergo a full cycle of replication in a test tube in the presence of viral RNA polymerase, viral nucleoprotein and human ANP32B, an essential host factor for influenza virus genome replication. journals.plos.org/plosbiology/...

We have a new PhD position in the lab - Identification and characterization of genomic signatures that lead to non-homologous recombination (the formation of DVGs) in enteroviruses. Please spread the word and/or apply.

This is not a new python library that interfaces with shell but a finding about an important phenomenon that enables one to develop the aforementioned (hypothetical) library. Well done all!

We're pleased to announce that #RELION5 is now available for beta testing! 🥳🥳🥳 Download it for free from github.com/3dem/relion/... #OpenSoftwareAcceleratesScience

Now on @biorxivpreprint.bsky.social: Dari Kimanius' paper on #Blush regularisation, a machine-learning based prior in #RELION5 trained on EMDB #cryoEM half-maps, which he uses to solve a #cryoEM data set of a 40 kDa protein:RNA complex that was previously intractable! www.biorxiv.org/content/10.1...

It is my pleasure to announce the @EMBO course on “In situ structural biology by Cryo-FIB and Cryo-ET” taking place @MPI_Biochem from 8.-14. April 2024. If you are interested in learning about cryo-ET and cryo-FIB including lift-out, apply by December 8th! meetings.embo.org/event/24-in-...

This is such a beautiful article! www.noemamag.com/the-sounds-o...

I wanted to consolidate a few thoughts on google, misinformation, large language models, enshittification, and the fate of the web as we know it. It started when @carlzimmer.bsky.social shared this remarkable example of Google being fooled by machine-generated bullshit online. 1/n

I wish protein building and refinement were this tactile…