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Posts by @tim_stasevich

Two weeks left for abstract submission - please do register; it's a great UK meeting, and lots of opportunities for ECRs to share their work 👇

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Evolution of a truncated nucleocapsid protein enhances SARS-CoV-2 fitness by suppressing antiviral responses SARS-CoV-2 has evolved to optimize its replication fitness in the human host. This study shows that a nucleocapsid gene mutation enhances production of a truncated protein that boosts viral fitness in...

💥 Paper published 💥

Curious how #SARS2 has changed since jumping into humans? We were too!

journals.plos.org/plosbiology/...

🧵 🧵 🧵

2 weeks ago 10 9 2 3
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Professor in Synthetic Organic Chemistry University of California, Irvine is hiring. Apply now!

Please RT!

The Dept of Chemistry at UC Irvine invites applications for a tenured faculty position in Synthetic Organic Chemistry. Deadline: July 1, 2026.

More information about the position can be found here: recruit.ap.uci.edu/JPF10109

@uciphyssci.bsky.social

4 days ago 41 46 0 1

there goes the central dogma, i guess. is nothing sacred anymore?

4 days ago 51 9 3 0
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A series of spontaneously blinking dyes for super-resolution microscopy - Nature Methods A series of spontaneously blinking dyes in the far-red range facilitate single-molecule localization microscopy. These dyes vary in their blinking properties and can be matched to the applications and...

Out in @natmethods.nature.com: More dyes. They work. Quite well. And blink. Pick the one that fits your target, your technique, and your labeling density. With too many collaborators and institutes to list, but anchored at @hhmijanelia.bsky.social www.nature.com/articles/s41...

6 days ago 166 64 2 2

My first, first author paper is now on #ScienceAdvances !

Linker histone H1 is a liquid-like "glue" condensing chromatin, which revises textbooks! 📖✨
science.org/doi/10.1126/sc…

Huge thanks to @kazu-maeshima.bsky.social , for supervision.
Amazing collab with @rcollepardo.bsky.social ’s group! 1/

1 week ago 35 12 5 0

My first PhD student‘s, Kavan Gor, paper on 5-color single-molecule imaging of co-transcriptional RNA folding is out in @science.org Advances!

He finds how RNA modification enzymes, antisense oligonucleotides and ribosomal proteins re-route nascent RNA folding.

See more details in EMBL post below!

3 weeks ago 81 20 0 1
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No Kings Fort Collins

3 weeks ago 5 0 0 0

Oops, looking at my response, I meant to say they DO contain the disulfides (MPNN did not mutate the Cys residues), but the folding does not appear to depend on their presence.

3 weeks ago 1 0 1 0
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A high-affinity split-HaloTag for live-cell protein labeling Nature Communications - Lin and colleagues present high-affinity split-HaloTag pairs for protein tagging and multiplexed labelling. This versatile system allows protein visualisation with diverse...

A high-affinity split-HaloTag for live-cell protein labeling. And much more.
www.nature.com/articles/s41...

3 weeks ago 131 53 2 1

Yes, they do not contain the disulfides (see Fig. 5A-C mutation bias). We also showed that the scFvs do not rely on those bonds to fold (Fig. S6), which is pretty cool.

3 weeks ago 1 0 1 0

Thanks again for the nice post and blog!

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Ultimately, as more functional vs. non-functional intrabodies are confirmed experimentally, I'm hoping to generate consensus 'functional' vs. 'non-functional' sequences to better rank scFv designs. Something akin to this nanobody paper from Constance Cepko's group: elifesciences.org/articles/68253

3 weeks ago 3 1 1 0

Really nice of you to provide this analysis of our paper. Thanks! As you may have noticed, what is still missing is a nice metric to predict which scFv designs will be functional inside cells. No metric we explored worked that well, although the new designs were certainly better than the originals.

3 weeks ago 1 0 1 0
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AI-assisted protein design to rapidly convert antibody sequences to intrabodies targeting diverse peptides and histone modifications AI-powered pipeline converts antibodies into functional intrabodies, enabling live-cell imaging of peptides and histone marks.

And in yesterday's journal club, we discussed this nice paper on transforming antibodies into intrabodies from @tim-stasevich.bsky.social et al. The authors put together a pipeline comprising ProteinMPNN to design a stabler protein sequence for the scaffold while keeping the antigen-binding loops.

3 weeks ago 23 7 1 0
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1/ 🚀 Excited to release: napari-mcp - agentic control of napari from any MCP-capable AI assistant!
Use it for interactive image processing, analysis, and visualisation! Really cool project from @ilan-theodoro.bsky.social from my team!
#napari #bioimageanalysis #MCP @biohub

4 weeks ago 39 10 3 1

🚨📰Now online in its full form www.nature.com/articles/s41...

4 weeks ago 15 8 0 0
Addgene: RNA-binding protein pooled CRISPR knockout library Use these CRISPR knockout pooled libraries to target RNA-binding proteins, including those essential for survival in certain cancers.

Probing cancer-specific vulnerabilities? The Yeo Lab's RBP CRISPR KO In Vivo Library targets 206 RNA-binding proteins prioritized from screens in KRAS-, BRCA1-, and MYC-driven cancers. Compact size + dox-inducible Cas9 make it perfect for in vivo screens in tumor xenografts.

4 weeks ago 6 1 0 0
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Kinetic proofreading as a mechanism for transcriptional specificity: www.biorxiv.org/content/10.6...
Very nice follow up to their review from last year genesdev.cshlp.org/content/39/1...
Non-equilibrium models may be key to understanding specificity in transcriptional regulation!

4 weeks ago 22 6 2 0
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Great meeting up with Jan Hendrik Spille this Monday at the APS annual meeting in Denver! He showed me some fantastic movies of histone dynamics in the context of biomolecular condensates. We had some good food too! #APSSummit2026

1 month ago 6 1 0 0
Interallelic cis-regulatory dominance promotes robustness and evolutionary innovation Dominance is a central principle of genetics, yet the mechanistic basis and the evolutionary consequences of dominance arising from cis-regulatory variation remain poorly understood. We examined the evolutionary trajectories of a pleiotropic developmental enhancer in Drosophila . A genotype–phenotype map between D. melanogaster and D. simulans enhancer sequences reveals extensive epistasis, and many homozygous evolutionary paths reduce transcriptional output. In heterozygotes, however, regulatory dominance masks variants that reduce gene expression, potentially relaxing evolutionary constraints. Using allele-specific reporters and imaging, we show that this dominance arises from interallelic interactions (also known as transvection) reinforced by transcriptional hubs. Importantly, this enhancer dominance is cell-type specific, raising the possibility that it conceals deleterious effects in essential tissues while revealing novel, ectopic activity in others. Interallelic regulatory hubs may therefore expand the range of mutational paths available to diploid genomes while preserving essential transcriptional output. ### Competing Interest Statement The authors have declared no competing interest.

New Preprint! When one enhancer allele changes another's regulatory output, is that bad? We found it could be a feature — interallelic cis-regulatory dominance buffers outputs AND enables evolutionary innovation. Two for one!

Led by @ottilie.bsky.social from @embl.org

doi: doi.org/10.64898/202...

1 month ago 39 13 2 0
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Thalia’s Team fundraising for OSCAR's Paediatric Brain Tumour Charity Help Chris Toseland raise money to support OSCAR's Paediatric Brain Tumour Charity

Three years ago Thalia was diagnosed with a brain tumour. She had multiple surgeries, chemotherapy and radiotherapy.

This year we are walking the Nine Edges Challenge to raise awareness and money for OSCAR's Paediatric Brain Tumour Charity.

Please donate: www.justgiving.com/team/thaliaf...

1 month ago 9 6 0 1
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How Congress can restore the independence of US science Members must go beyond reinstating US government research spending and re-establish decentralized governance at the National Institutes of Health and other agencies.

The most impt change at #NIH and to US science this year is bigger than grant cancellations— it’s how the agency is governed.

For 75 years NIH has been largely independent of presidential control. That’s changed this year. New piece from me and @nataliebaviles.bsky.social in @nature.com
🧪

1 month ago 357 196 7 10
Antibody of the Week

Antibody of the Week

New antibodies just dropped! @ipiproteins.bsky.social has released a new ROBO/Slit antibody family available through @addgene.org. These reagents target key axon guidance and cell migration pathways. Check them out: https://twp.ai/4ixP3p

1 month ago 6 5 0 1
Redirecting

Really pleased to share the *final* version of @katiegelder.bsky.social's super work, profiling the functional roles of #IDRs in CBP. Published today 🎉

🔗https://doi.org/10.1016/j.celrep.2026.117109

#IDRs #condensates #transcription #CBP #generegulation #enhancers (1/7)

1 month ago 24 10 2 0
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Sickening...

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Awesome names for these proteases: Vesuvius and Krakatoa.

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Some molecular machines, like ribosomes, can persist for long periods of time in cells.

Could molecular aging of ribosomes shape how proteins are made?

In our new preprint we track ribosomes as they age in cells and uncover unexpected effects on translation (1/10)

www.biorxiv.org/content/10.6...

1 month ago 122 50 4 5

So great to see this work come out from my colleague's lab @cdsnow.bsky.social at CSU. Truly a dream-come-true innovation that will really accelerate X-ray structure determination. Applications are endless. Take a look and see if your protein of interest will work.

1 month ago 1 2 0 0

Stackreg will do it for you. But you may need to background subtract so it focuses on the thing moving and not on background stuff.

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