Pranav NM Shah
@proteincapsid.bsky.social
📤 453
📥 227
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Postdoc at STRUBI. Using cryo-EM to see viruses better.
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Pranav NM Shah
Shyamal
3 days ago
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!
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Amazing!!
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about 1 month ago
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Daniel Hurdiss
about 1 month ago
Recovery of infectious recombinant human norovirus using zebrafish embryos | PNAS
www.pnas.org/doi/abs/10.1...
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PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
https://www.pnas.org/doi/abs/10.1073/pnas.2526726122
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Kiarash Jamali
about 2 months ago
I’m excited to announce that I will be starting my research group on computational enzyme design at the Generative Biology Institute, Oxford, UK (
@eitoxford.bsky.social
)! PhD applications are open, deadline is Jan 8th (
www.chem.ox.ac.uk/genbio-dtp
). Email
[email protected]
with any questions!
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GenBio DTP
Optional supporting text
https://www.chem.ox.ac.uk/genbio-dtp
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Daniel Hurdiss
about 2 months ago
It’s been a while since I put together the Structural Virology starter pack, and I’m sure some new folks have joined Bluesky since then. There’s still plenty of space to fill, so if you’d like to be added to the list just let me know.
#virology
#cryoEM
go.bsky.app/Qxv95BL
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Dawid Zyla
2 months ago
ProteinCHAOS runs entirely in the browser and lets you choose how to visualize your protein structures. It supports PDB files from the PDB and AlphaFold servers and offers several visual themes so you can "paint" abstract art with protein traces. I hope it helps you create some interesting images!
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10 days and 4 Uni’s later, happy to be back in Oxford with a head full of ideas! Thanks once again
@danielhurdiss.bsky.social
, Panagiotis Kastritis,
@schurlab.bsky.social
and Pradyumna Paranjape for hosting me! Enjoyed discussing science with you and your colleagues and lab members!
2 months ago
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Spent my childhood in my G’Pa’s chem lab, loved birds then photography and the photography of viruses. Been capturing virus images since 2010 and across 3 continents.
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2 months ago
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Harmit Singh Malik
2 months ago
Scientific journals: we don’t want you using generative AI because it makes shit up. Same journal: here is an AI summary or evaluation of this paper. This might be more useful than the actual abstract or paper that the authors freaking wrote Same journal: AI cover art which makes no sense? Oooh!
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Insightful!
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2 months ago
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Alan Brown
2 months ago
Our lab is seeking a Postdoctoral Fellow. The position is intentionally broad, as we are looking for outstanding researchers from diverse scientific backgrounds to advance our understanding of cilia and ciliopathies:
academicpositions.harvard.edu/postings/15526
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HMS - Postdoctoral Fellow in BCMP, Brown Lab
We invite applicants for a postdoctoral fellow position in the Brown lab at Harvard Medical School in Boston, Massachusetts. The Brown lab uses structural, biophysical, and biochemical approaches to d...
https://academicpositions.harvard.edu/postings/15526
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Thank you for hosting me
@danielhurdiss.bsky.social
at
@utrechtvirology.bsky.social
! It was wonderful to visit and spend time with the members of the group. Until next time!
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2 months ago
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Pranav NM Shah
2 months ago
MPI–Weizmann Postdoc (4-year, co-mentored) Together with Ori Avinoam (Weizmann), we’re recruiting a postdoc to uncover membrane remodelling mechanisms in muscle development using cryo-EM of recombinant proteins, and cell imaging/CLEM. Apply here by 21.11.25
forms.gle/ZtDWUjcTBu4d...
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MPI-WIS postdoc application
Max-Planck–Weizmann Postdoc (4-year, co-mentored) Together with Ori Avinoam (Weizmann), we’re recruiting a postdoc to uncover membrane remodelling mechanisms in muscle development using recombinant pr...
https://forms.gle/ZtDWUjcTBu4dZ8v5A
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"The result is a treadmill of constant activity with limited progress whereas core scholarly practices – such as reading, reflecting and engaging with others’ contributions – is de-prioritized."
arxiv.org/pdf/2511.04820
Will the real scientists please stand up?
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https://arxiv.org/pdf/2511.04820
2 months ago
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Ricardo D. Righetto
3 months ago
I'm pleased to announce 🍦 Icecream 🍨 v0.3! New features include: * Training on multiple tomograms (same training time, with linear increase in RAM) 🚀 * Logging and plotting of the loss function 📉 * The --scale option is now called --eq-weight for clarity 😉 We'd love to hear your feedback! 🙏🏽
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Max Renner
3 months ago
Our new preprint is out 🥳🥳🥳 Henipaviruses, like Nipah and Hendra, package their genomes inside helical shells built by thousands of nucleoproteins. These nucleocapsids are essential to protect the viral RNA, but how do they ever let the polymerase in to read the sequence? 👇
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Tomas Malinauskas
3 months ago
Jeremy is an excellent scientist and leader. Highly recommended!
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Sjors Scheres
3 months ago
We are looking for a computational postdoc to work with us on new optimisation algorithms to make
#RELION
even better. Join our bubbly team at the
@mrclmb.bsky.social
in Cambridge, UK. 🤗 RTs appreciated.
mrc.tal.net/vx/appcentre...
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Quick Check Needed
https://mrc.tal.net/vx/appcentre-ext/brand-3/spa-1/candidate/so/pm/4/pl/1/opp/2737-Postdoctoral-Scientist-Structural-Studies-Dr-Sjors-Scheres-LMB-2737/en-GB
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Jeremy Keown
3 months ago
warwick.ac.uk/fac/cross_fa...
I am advertising for a PhD position in my group. We'll be investigating how pathogenic RNA viruses replicate in the nucleus. The project will teach cryoEM/ET, virus culture, and in vitro assays. If you're interested reach out and I'd be happy to have a chat.
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Dr Jeremy Keown
Dr Jeremy Keown
https://warwick.ac.uk/fac/cross_fac/mibtp/phd/supervisors/JKeown/#pathogenic_RNA
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Jeremy Keown
3 months ago
www.biorxiv.org/content/10.1...
Really excited to have our work out in the world. CCHFV has a 450kDa L-Protein, about twice the size of L-Proteins from other segmented RNA viruses. We have used cryoEM and functional assays to begin to understand it this massive multifunctional protein works.
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Structural and functional characterisation of the Crimean-Congo Haemorrhagic Fever Virus RNA Dependent RNA Polymerase
Crimean-Congo Haemorrhagic Fever Virus (CCHFV) is found across Africa, Asia, and the Middle East where it can cause Haemorrhagic outbreaks with high case fatality rates. Central to the viral life cycl...
https://www.biorxiv.org/content/10.1101/2025.10.21.683639v1
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Martin Steinegger 🇺🇦
3 months ago
End-to-end protein design in the browser through evedesign. Generate and interactively explore designs in 2D/3D and export them as codon-optimized DNA. The underlying open source framework (released soon) is build to easily add new methods, more on that soon. 🌐
evedesign.bio
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Neat!
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4 months ago
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Nice one Flo
@schurlab.bsky.social
!
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4 months ago
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Pranav NM Shah
Wouter Van Putte
5 months ago
Our aim was to create a kit to produce in-house 1.2 holey carbon cryoEM grids, in three simple steps, at less than half of the prize, and without due times. I think we are there. Academic teams that want to know more, receive training or order a kit, please contact
[email protected]
.
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cryoEM papers
4 months ago
Confidence-guided cryo-EM map optimisation with LocScale-2.0
www.biorxiv.org/content/10.1101/2025.09.11.674726v1
#cryoem
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Arjen Jakobi
4 months ago
We finally wrote up the paper for LocScale-2.0.
edu.nl/pvhxv
Please try it out. LocScale is evolving & we are actively building in new features and improvements. Your feedback will help us shape the next steps. Code:
cryotud.github.io/locscale/
Work by
@alok-bharadwaj.bsky.social
and Reinier.
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Pranav NM Shah
Oli Clarke
4 months ago
This one is a bit of a departure from the usual and definitely a work in progress! We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below. Read on for details... 1/x
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Marija Backovic
5 months ago
Ben Vollmer and Kay Grunewald & team
@cssbhamburg.bsky.social
and the beautiful structure along important insights for herpesvirus entry and membrane fusion.
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Pranav NM Shah
Centre for Structural Systems Biology CSSB
5 months ago
Researchers from CSSB &
@mpi-nat.bsky.social
have generated a highly potent nanobody that neutralizes a protein essential for the herpes virus infection. Published in
@nature.com
, the findings promise new therapies to treat & prevent infections
@leibnizliv.bsky.social
@uni-hamburg.de
t1p.de/cxt7a
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Pranav NM Shah
Martin Pacesa
5 months ago
Exciting to see our protein binder design pipeline BindCraft published in its final form in @Nature ! This has been an amazing collaborative effort with Lennart, Christian,
@sokrypton.org
, Bruno and many other amazing lab members and collaborators.
www.nature.com/articles/s41...
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Pranav NM Shah
5 months ago
One week left to apply for a fully funded PhD position in my group! Please repost.
jobrxiv.org/job/max-plan...
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PhD student in cryo-ET of membrane trafficking at MPI-NAT in Göttingen, DE
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
https://jobrxiv.org/job/max-planck-institute-for-multidisciplinary-science-27778-phd-student-in-cryo-et-of-membrane-trafficking-at-mpi-nat-in-gottingen-de/
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Jeremy Keown
5 months ago
Very pleased to have our new work out where we perform a structure/function study on the bornavirus polymerase complex with fantastic coauthors. Have a read
www.nature.com/articles/s41...
@warwicklifesci.bsky.social
@loiccarrique.bsky.social
@franziskaguenl.bsky.social
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The structure of the mammalian bornavirus polymerase complex - Nature Communications
Borna disease virus 1 replicates and transcribes its negative sense RNA genome in the nucleus of infected cells. Here, the authors present the cryoEM structures of the large polymerase protein in comp...
https://www.nature.com/articles/s41467-025-62906-4
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SBGrid Consortium
6 months ago
New Title Alert: Tomcat- a web-based tool designed for cataloging and managing tomography data providing an easy way to view, annotate, and organize tomograms. Learn more here:
buff.ly/75XbvPv
#SBGrid
#SBGridSoftware
#StructuralBiology
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GitHub - shahpnmlab/tomcat: Tomography Catalogue Tool
Tomography Catalogue Tool. Contribute to shahpnmlab/tomcat development by creating an account on GitHub.
https://buff.ly/75XbvPv
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Pranav NM Shah
cryoEM papers
6 months ago
Twist and Scout: Analysis and Curation of Particles in Cryo-Electron Tomography Using TANGO
www.biorxiv.org/content/10.1101/2025.07.17.665296v1
#cryoem
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Pranav NM Shah
Daniel Hurdiss
7 months ago
Latest preprint from the lab, many years in the making! By combining
#cryoEM
with
#AlphaFold3
modelling, we propose that norovirus NS3 forms a transmembrane RNA translocase. This could have big implications for our understanding of viral replication & assembly (🧵)
www.biorxiv.org/content/10.1...
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Michael Grange
7 months ago
Proud to share our latest paper.
doi.org/10.1016/j.cr...
Through the dedication of
@glynnca.bsky.social
and
@cryingem.bsky.social
we report a thorough method to image molecular organisation within hippocampus tissue. Structural biology in tissue is well and truly here!
@rosfrankinst.bsky.social
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cryoEM papers
8 months ago
Chromatic aberration (Cc) corrected cryo-EM: The structure of pseudorabies virus (PRV) using both zero-loss and energy loss electrons
pubmed.ncbi.nlm.nih.gov/40499325/
#cryoem
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HMS Image Analysis Collaboratory
8 months ago
🎀✨Recording now available ✨🎀
youtu.be/jtDunWK8g1o?...
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Svetlana Dodonova
8 months ago
We’ve uncovered Asgard chromatin structures formed by a Hodarchaeal histone : closed hypernucleosome conserved in archaea and an open form resembling the H3-H4 eukaryotic octasome. Fantastic work by
@harshranawat.bsky.social
!
www.biorxiv.org/content/10.1...
#Chromatin
#Asgard
#Archaea
#cryoEM
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Max Fürst
9 months ago
If u ever had to depict proteins as schematics in papers, u know the dilemma: how to create a pretty “blob”? If structure ends up big & central, u’ll render it with PyMol et al, but for a truly schematic depiction u want a biorender-style icon, but for YOUR protein. Think I’ve finally found a way.
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Alister Burt
9 months ago
In the Bay Area? Love computational cryo-EM/ET? Come join us for the first edition of FrostByte - a meeting for the local computational cryo-EM methods community! Details and registration at
frostbyte-cryoem.github.io
Thanks to
@joshdcryoem.bsky.social
and Ariana Peck for help organizing!
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Joe McKellar
9 months ago
⚠️ Discovery of a new mode of viral transmission: Deltaviruses spread through a viral Trojan Horse ! These viral satellites that do not encode their own glycoproteins, are in fact physically encapsulated within their helper virus particles!
www.biorxiv.org/content/10.1...
A thread 1/14
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Dawid Zyla
9 months ago
1/5: Over the last few months, I have been working on an update for the
#FollowRelionGracefully
dashboard, which offers improved real-time job previews for
#cryoEM
#Relion
jobs.
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Congrats
@doryenbubeck.bsky.social
!
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11 months ago
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Great stuff
@tomo.science
! Quite inspiring 🥰
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11 months ago
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Pranav NM Shah
Structural Biology
11 months ago
TomoCPT is a transformer-based solution that reformulates particle detection in cryo-ET as a centroid-prediction task using Gaussian labels
#CryoET
#ParticlePicking
#SubTomogramAveraging
doi.org/10.1107/S205...
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Pranav NM Shah
AI x Bio Discovery
11 months ago
ProPicker: Promptable Segmentation for Particle Picking in CryogenicElectron Tomography
[new] Cryo-ET: 3D seg. picks particles via prompts.
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Mohammed AlQuraishi
11 months ago
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👇!
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Nicolas Fanget
11 months ago
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
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20 years of research on giant viruses - npj Viruses
npj Viruses - 20 years of research on giant viruses
https://www.nature.com/articles/s44298-025-00093-1
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