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Ali Shaib

@alishaib.bsky.social
233 followers 221 following 119 posts

I do science for a living. Group leader at UMG Göttingen. Opinions my own. X: @AliHShaib, my lab: www.neuro-physiol.med.uni-goettinge…

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Ali Shaib @alishaib.bsky.social · 06/10/2026
there probably isn’t a historically honest three-person solution to the #optogenetics #Nobel. Miesenböck came before; Hegemann discovered the ChR2 system; Nagel proved its electrophysiology; Deisseroth drove neuronal optogenetics; Boyden brought the key intellectual leap and famous 1 a.m. experiment
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Ali Shaib @alishaib.bsky.social · 01/10/2026
Synapsin #disappears. Actin #remembers www.biorxiv.org/content/10.6... In our latest #preprint: Ordered actin scaffolds largely persist after synapsin condensates dissolve, suggesting a structural #memory that could help #synapses rebuild vesicle clusters after activity.
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Ali Shaib @alishaib.bsky.social · 12/08/2026
I have also noticed this. It blocked me for about 10 seconds for 3 consecutive times. And refreshing doesn't help
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Ali Shaib @alishaib.bsky.social · 11/08/2026
A big thank you to you, Rosy for handling our manuscript
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Rosy Favicchio @rosyf.bsky.social · 11/08/2026
Find the readcube link:
rdcu.be
ONE microscopy
Nature Protocols - An approach for combining expansion microscopy with fluctuation-based super-resolution analysis enables the visualization of individual proteins via conventional fluorescence...
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Rosy Favicchio @rosyf.bsky.social · 11/08/2026
The protocol details procedures for gel embedding, labeling, expansion, image acquisition and data analysis, as well as a stable, user-friendly software package for efficient fluctuation analysis.
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Rosy Favicchio @rosyf.bsky.social · 11/08/2026
One-step nanoscale expansion microscopy combines #ExM with fluctuation-based super-resolution analysis to enable the direct visualization of individual protein shapes, using conventional fluorescence microscopes. @natprot.nature.com 🧪 🔬 #imaging @alishaib.bsky.social
nature.com
ONE microscopy - Nature Protocols
An approach for combining expansion microscopy with fluctuation-based super-resolution analysis enables the visualization of individual proteins via conventional fluorescence microscopy.
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Ali Shaib @alishaib.bsky.social · 11/08/2026
for convenience, I add figure 2 from the first publication here.
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Ali Shaib @alishaib.bsky.social · 11/08/2026
happy to see this day come. The country stopped executions since early 2000s but that was by political choice, now its a law.
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Ali Shaib @alishaib.bsky.social · 11/08/2026
also here: www.nature.com/articles/s42... and here, albeit a preprint: pubmed.ncbi.nlm.nih.gov/42282583/
nature.com
Microtubules as a versatile reference standard for expansion microscopy - Communications Biology
Expansion microscopy (ExM) is advancing, but lacks consensus on validation structures. Microtubules are an ideal ExM validation tool, due to their size, which is optimal for high-resolution techniques...
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Ali Shaib @alishaib.bsky.social · 11/08/2026
sure, please see more examples here: www.nature.com/articles/s41...
nature.com
One-step nanoscale expansion microscopy reveals individual protein shapes - Nature Biotechnology
Combining expansion microscopy with super-resolution radial fluctuations captures the morphology of single proteins.
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Ali Shaib @alishaib.bsky.social · 11/08/2026
our 5th paper of 2026 is out: ONE microscopy www.nature.com/articles/s41... #Protein shapes, #sub-nanometer precision, conventional #fluorescence #microscopes, and now #ONEpy. 3 more papers in revision, more this year. We’re only getting started. #optical #structural #biology is becoming a field
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Ewerslab @ewerslab.bsky.social · 07/08/2026
Incredible. @alishaib.bsky.social et al. pushingvthe boundaries of ExM again:
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Ali Shaib @alishaib.bsky.social · 07/08/2026
Heartwarming to see being approved by a legend
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Ngại
ALT: Ngại
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Ali Shaib @alishaib.bsky.social · 07/08/2026
40× objective*
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Ali Shaib @alishaib.bsky.social · 07/08/2026
Exciting new preprint from Ignacio Vega Vásquez, Sauer lab, my team and collaborators: #Mega-ExM. From just ~20 NPCs imaged with a 10× objective on a confocal, we reconstructed the 3D structure at ~33 Å. A step toward optical structural biology in intact cells. www.biorxiv.org/content/10.6...
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Ali Shaib @alishaib.bsky.social · 29/07/2026
#congratulations to Janna, Markus and the team! By combining 8× expansion with #dSTORM, we resolved the 8 nm spacing between neighboring tubulin molecules and revealed ~44 nm RIM/Munc13-1 rings in neurons. Thank you for letting us contribute a small part. story: rdcu.be/fwBYY #cool #imaging #tiny
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Ali Shaib @alishaib.bsky.social · 17/07/2026
Back in EMBL Heidelberg for a super-resolution lecture.
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Ali Shaib @alishaib.bsky.social · 13/07/2026
on 13 August, we welcome Prof. Dr. Liangyi Chen from PKU for an SFB 1286 seminar in #Göttingen. discussing #live-cell and cross-scale #imaging reveal #disease mechanisms, from #rare #disorders to #diabetes. 📍 Manfred Eigen Lecture Hall ☕ 13:00 Coffee and refreshments 🎤 13:30 Lecture 🍽️ 14:45 Lunch
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Ali Shaib @alishaib.bsky.social · 10/07/2026
Our new work is now published in Engineering Applications of Artificial Intelligence, where we investigate whether #quantum #ai can improve #biomedical #image #analysis and identify where it offers measurable advantages over classical AI. Story: authors.elsevier.com/a/1nPV93OWJ9...
authors.elsevier.com
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Ali Shaib @alishaib.bsky.social · 10/07/2026
Congratulations to my epic collaborator 🎊✨️
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Constantin Pape @cppape.bsky.social · 09/07/2026
Sharing a big update: I started a group at the MPINAT in Göttingen! We will develop AI for analyzing how proteins interact in the cellular environment based on cutting edge imaging. This appointment is in parallel to the university, where I will retain my current group.
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Ali Shaib @alishaib.bsky.social · 02/07/2026
calling it a day. manuscript submitted, portal survived, one episode of 'daemon of the shadow realm' earned
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Ali Shaib @alishaib.bsky.social · 01/07/2026
in this #review, we argue: #AI is becoming a new pillar of #LifeScience research. Beyond data analysis, AI is beginning to contribute to scientific reasoning, experimental design, molecular #discovery, and laboratory automation, reshaping how biological research is done. pubs.acs.org/doi/10.1021/...
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Jase Gehring @skyjase.bsky.social · 29/06/2026
jelly is just under-appreciated. Playing with it is Good and Necessary
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Ali Shaib @alishaib.bsky.social · 29/06/2026
i prefer the term "gel engineer" it sounds more employable 😄
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Ali Shaib @alishaib.bsky.social · 28/06/2026
proof to my family that i wasn't just playing with jelly in the lab
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Spy Family Spy X Family
ALT: Spy Family Spy X Family
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Ali Shaib @alishaib.bsky.social · 28/06/2026
We may have slightly underestimated how much "really big" was
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Kowloon Generic Romance Anime
ALT: Kowloon Generic Romance Anime
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Ali Shaib @alishaib.bsky.social · 24/06/2026
After nature picking up the swimming-pool analogy, preLights published the meme that became part of the paper 😅 prelights.biologists.com/highlights/t...
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Ali Shaib @alishaib.bsky.social · 24/06/2026
another #Nature #News feature: from billion-fold volumetric expansion to in situ structural biology. www.nature.com/articles/d41... The recent #UMG - #MIT preprint shows what is possible on purified systems. Next challenge: same but inside intact cells a brilliant piece from @ecallaway.bsky.social
nature.com
Making samples one billion times bigger lets simple microscopes pinpoint amino acids
Stretching protein samples in all directions pulls molecules farther apart, allowing them to be visualized using only light microscopy.
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preLights @prelights.bsky.social · 24/06/2026
From cells to amino acids: 1000ExM pushes expansion microscopy even further 🔬 #microscopy @fadelvalle.bsky.social covers an impactful #preprint from the labs of @bergerlab.bsky.social, @alishaib.bsky.social, Silvio Rizzoli & @eboyden3.bsky.social #preLight⬇️ prelights.biologists.com/highlights/t...
prelights.biologists.com
Thousandfold Expansion Microscopy - preLights
From cells to amino acids: 1000ExM pushes expansion microscopy beyond 1000×, potentially resolving individual protein residues on standard microscopes. Bigger volume expansion opens a new frontier for...
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Ali Shaib @alishaib.bsky.social · 23/06/2026
Content not paid for by @abberior.rocks 😅 www.linkedin.com/posts/exm-ex...
linkedin.com
#exm #expansionmicroscopy #sted #singlemoleculeimaging #stardyes #abberior | abberior
𝗘𝘅𝗽𝗮𝗻𝘀𝗶𝗼𝗻 𝗺𝗶𝗰𝗿𝗼𝘀𝗰𝗼𝗽𝘆 physically enlarges the sample, but it also dilutes fluorophores, exposes them to harsh chemistry, and leaves them in a water-rich gel. Not every dye survives that. Ali Shaib and...
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Ali Shaib @alishaib.bsky.social · 23/06/2026
Expansion goes #quantum Our new #arXiv #preprint arxiv.org/abs/2606.22551, led by Dr. Milton Mondal, asks whether hybrid quantum neural networks can learn from expansion microscopy #protein #images. We identify a measurement-related bottleneck and introduce Quantum Measurement Temperature. #ExM #ai
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phillipsmithnz.bsky.social @phillipsmithnz.bsky.social · 04/06/2026
I’ve spent many nights over many years wondering if something like this was possible. So impressed to see it happen!
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Ali Shaib @alishaib.bsky.social · 03/06/2026
Not sure what the free world currently means.
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Ali Shaib @alishaib.bsky.social · 03/06/2026
Amen
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Yamada Kun Anime Blush
ALT: Yamada Kun Anime Blush
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Ali Shaib @alishaib.bsky.social · 03/06/2026
The specimen has reached the minimum size requirement for a faculty position 😄
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Ali Shaib @alishaib.bsky.social · 03/06/2026
that's how collaborations start
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Rita Strack @ritastrack.bsky.social · 02/06/2026
OH lol I thought you meant S. Figs 6 and 7 LOLOLOL I do like this for a graphical abstract though!
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Ali Shaib @alishaib.bsky.social · 02/06/2026
Epic!
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Dancing Cat Meme - Boogie Kitten
ALT: Dancing Cat Meme - Boogie Kitten
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Ali Shaib @alishaib.bsky.social · 02/06/2026
The scientific community and two Editors-in-Chief are supporting Supplementary Figure 67 to be included in the manuscript. I'll pitch this idea with the other co-authores 😄 Wish me luck, haha Story: www.biorxiv.org/content/10.6...
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Ali Shaib @alishaib.bsky.social · 02/06/2026
Haha, thank you! I knew you'd understand the scientific importance of including the 1,000× ExM panel with the translucent 1000x expandes mouse, Super-res 1 & 2 Kaijos, and ExM Doge dog. Super cool Chief Editor 😎
static.klipy.com
Chris Pratt's Happy Surprise Reaction
ALT: Chris Pratt's Happy Surprise Reaction
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Ali Shaib @alishaib.bsky.social · 02/06/2026
I won't hide, haha, we had an emergency phone call with the team, 4 of us were awake after midnight. We didn't freak out, haha. But we do agree that the wording can be better. We'll definitely work on this, especially that we have a second manuscript we are aiming to put on biorxiv soon. Thx!
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Jibran Khokhar @drjkhokhar.bsky.social · 02/06/2026
Beautiful work! Congrats!
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Ali Shaib @alishaib.bsky.social · 02/06/2026
@ritastrack.bsky.social, asking for a friend: would an Editor-in-Chief allow Supplementary Fig. 6-7? This might be a first in scientific publishing 😅
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Shy Cartoon Cat Blushing
ALT: Shy Cartoon Cat Blushing
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Ali Shaib @alishaib.bsky.social · 02/06/2026
Your experiments are next
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Steve Carell: Cheers To That
ALT: Steve Carell: Cheers To That
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Ali Shaib @alishaib.bsky.social · 02/06/2026
This GIF has now been added as Supplementary Fig. 68.
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Ali Shaib @alishaib.bsky.social · 02/06/2026
a 1000× C. elegans is fine. A 1000× mouse may require a postal code and municipal approval 🤷🏻‍♂️
static.klipy.com
Tom and Jerry: Can't Sleep Bat Prank
ALT: Tom and Jerry: Can't Sleep Bat Prank
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Ali Shaib @alishaib.bsky.social · 02/06/2026
I think I count
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Nick Jonas Waving Hand and Smiling
ALT: Nick Jonas Waving Hand and Smiling
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Ali Shaib @alishaib.bsky.social · 02/06/2026
We may need a permit from the urban planning department before we can expand it 😄
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