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Jacco

@jaccodk.bsky.social
65 followers 302 following 20 posts

Working on fun label-free optical engineering, electrokinetics and biophysics projects at the lab of Sergii Pud. Previously in Leiden as PhD in the lab of Michel Orrit.

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Reposted by Jacco
Frédéric Restagno @frestagn.bsky.social · 29/08/2026
Ce matin, petit cadeau : l’expérience de Jean Perrin en notebook. La question : comment a-t-il fait ? Qu’a-t-il mesuré ? C’est le 100eme anniversaire de son prix Nobel.
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Sarah Hörst @planetdr.bsky.social · 11/05/2026
You know AI is evil when it has me rooting for elsevier
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Tanner Fadero @tanner-fadero.bsky.social · 27/07/2026
ASI has begun offering large aperture tube lenses! Really useful for large-FOV imaging at a variety of focal lengths. The large aperture is also useful if you need to put the tube lens in a 4f-configuration without clipping! @jsdaniel02.bsky.social www.asiimaging.com/product/sm2-...
asiimaging.com
SM2-TUBE-200C: Plan-corrected tube lens assembly with 200 mm focal length and SM2 interface – ASI
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Teun Huijben @teunhuijben.bsky.social · 29/06/2026
🚨Open call to the Cell Tracking crowd out there🚨! Loïc's team at @biohub.org opened our Kaggle Challenge for 3D cell tracking, with $60k of prize money💰. Spread the news, delve into our gigabytes of imaging (zarr3) and cell tracking (geff) data of developing zebrafish embryos, and start tracking 🤩
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Jacco @jaccodk.bsky.social · 26/06/2026
Some fun with algorithms that seem to have bee used without human supervision. In 2011.
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Paolo Crosetto @paolocrosetto.bsky.social · 11/06/2026
An inevitable development for for-profit Open Access publishers is Fordism: automation & massification. If you earn money piece-rate for each paper you want to increase the flow of papers while minimizing cost. e.g. very low and *uniform* turnaround times at Frontiers and MDPI
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Nature Methods @natmethods.nature.com · 11/06/2026
Chromatix: a standardized framework for developing, sharing and reusing wave-optics simulations. www.nature.com/articles/s41...
nature.com
Chromatix: a differentiable, GPU-accelerated wave-optics library - Nature Methods
Based on JAX, Chromatix provides a standardized framework for developing, sharing and reusing wave-optics simulations. The capabilities are demonstrated in a number of computational microscopy applica...
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Anna-Karin Gustavsson @gustavssonlab.bsky.social · 11/06/2026
Excited that our work on versatile and scalable micromirror inserts that enable high-contrast and high-resolution single-objective light sheet microscopy in conventional sample chambers is now published in Nano Letters! doi.org/10.1021/acs.... @pubs.acs.org #soTILT3D #soLLS #microscopy #nanoscale
doi.org
Versatile and Scalable Reflective Micromirrors for Single-Objective Light Sheet Microscopy
We present a tunable microfabrication pipeline for creating robust, reflective inserts that adapt conventional commercial imaging chambers for single-objective light sheet (LS) illumination. This system reduces the complexity associated with dual-objective LS setups and specialized LS chambers while retaining the native functionality and biocompatibility of the original chambers. The fabricated insert features a metalized, 3D nanoprinted micromirror with an angled reflective surface, enabling alignment of a thin LS for sectioning and imaging throughout mammalian cells. Using this pipeline, we demonstrate that single-objective LS illumination achieves an over 4X improvement in the signal-to-background ratio compared with conventional widefield epi-illumination in both fixed and live cell samples. Furthermore, we show substantial resolution enhancement for single-molecule localization microscopy compared to epi-illumination for improved imaging at the nanoscale. The versatile and scalable design offers an easily implemented approach to bring the benefits of single-objective LS microscopy to a wide array of biological studies.
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jimgalbraith27.bsky.social @jimgalbraith27.bsky.social · 03/04/2026
How do proteins find their way to the cell's leading edge? @jimgalbraith27.bsky.social & @cathygalbraith.bsky.social break down how bleach line, FLOP, single-particle tracking, FCS & iPALM reveal intracellular fluid flow and an actin-myosin compartment barrier. doi.org/10.1038/s414...
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Jacco @jaccodk.bsky.social · 21/03/2026
Thank you for such a clear definition!
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Alex Imas @aleximas.bsky.social · 29/01/2026
New post: What is the impact of AI on productivity? I review all of the studies and data that I can find and try to provide a synthesis. A disagreement emerges: micro studies find positive benefits but these benefits are yet to show up in the macro data. aleximas.substack.com/p/what-is-th... 🧵
aleximas.substack.com
What is the impact of AI on productivity?
Reconciling the micro and the macro evidence
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Dulwich Quantum Computing @dulwichquantum.bsky.social · 28/01/2026
Welcome to the era of vibe science! openai.com/index/introd...
openai.com
Introducing Prism
Accelerating science writing and collaboration with AI.
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Mark A. Hanson @hansonmark.bsky.social · 26/01/2026
Plus, MDPI/Frontiers spend big money to convince governments they're not just legit, but leaders. Frontiers just sponsored WEF Davos, MDPI signed a deal with German national science agency. 🇩🇪+MDPI: www.timeshighereducation.com/news/germany... Davos: sciencehouse.frontiersin.org/event/945d08... 2/3
timeshighereducation.com
Germany faces questions over publishing agreement with MDPI
Landmark deal should raise questions about publisher’s practices on peer review, citations and special issues, say research sleuths
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depths of wikipedia @depthsofwikipedia.bsky.social · 15/01/2026
wikipedia turns 25 today! the last unenshittified major website! backbone of online info! triumph of humanity! powered by urge of unpaid randos to correct each other! somehow mostly reliable! "good thing wikipedia works in practice, because it sure doesn't work in theory" - old wiki adage
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Mark A. Hanson @hansonmark.bsky.social · 13/01/2026
We've got ISSUES. Literally. We scraped >100k special issues & over 1 million articles to bring you a PISS-poor paper. We quantify just how many excess papers are published by guest editors abusing special issues to boost their CVs. How bad is it & what can we do? arxiv.org/abs/2601.07563 A 🧵 1/n
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Nature Nanotechnology @natnano.nature.com · 17/10/2025
Now online: October 2025 Issue. - Focus Issue on #biosensing, - DNA moiré superlattices, - Sugars at Ångström-resolution, - Solid-state #nanopores, - Non-aqueous Li #batteries, - - Neuromorphic vision, - Peptide #hydrogels, - Deep learning for #LNPs and more... www.nature.com/nnano/volume...
The image on the cover shows two sugars from the same cell-surface glycan separated by 9 Å, visualized with RESI (resolution enhancement by sequential imaging) enabled by metabolic labelling with DNA barcodes.

IMAGE: Luciano A. Masullo, Max Planck Institute of Biochemistry,  Germany.

COVER DESIGN: Vanitha Selvarajan

Original paper: Masullo, L.A.,  et al. Ångström-resolution imaging of cell-surface glycans. Nat. Nanotechnol. 20, 1457–1463 (2025). https://doi.org/10.1038/s41565-025-01966-5

Abstract: Glycobiology is rooted in the study of monosaccharides, ångström-sized molecules that are the building blocks of glycosylation. Glycosylated biomolecules form the glycocalyx, a dense coat encasing every human cell with central relevance—among others—in immunology, oncology and virology. To understand glycosylation function, visualizing its molecular structure is fundamental. However, the ability to visualize the molecular architecture of the glycocalyx has remained challenging. Techniques such as mass spectrometry, electron microscopy and fluorescence microscopy lack the necessary cellular context, specificity and resolution. Here we combine resolution enhancement by sequential imaging with metabolic labelling, enabling the visualization of individual sugars within glycans on the cell surface, thus obtaining images of the glycocalyx with a spatial resolution down to 9 Å in an optical microscope.
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Zach Marin @zacsimile.bsky.social · 12/01/2026
Manim (www.manim.community) is such a neat tool for generating videos that describe microscopy theory. It’s possible to animate a fluorophore behaving as a Lorentzian with a single line of code—amazing! Code (I’m so sorry about the variable names) here: github.com/zacsimile/ra...
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Sergey Frolov🇺🇦 @spinespresso.bsky.social · 08/01/2026
The rarest of sights - a big glossy journal publishing negative replications! Yes, we had to bundle 4 replications into one article AND we had to wait 2 (!!) years in peer review, but here we are: www.science.org/doi/10.1126/...
science.org
Data sharing helps avoid “smoking gun” claims of topological milestones
Manipulating the topology of electronic bands can realize new states of matter, with possible implications for information technology. A central question is how to tell whether a topological regime ha...
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piatkevich.bsky.social @piatkevich.bsky.social · 23/12/2025
Wow! This is so cool and way more fun than boring BioRender! Plus, developing fine motor skills through hand drawing and creativity without limitations in shapes or form! Try it out yourself here chat.figurelabs.ai/invitation/i...
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Itai Yanai @itaiyanai.bsky.social · 19/12/2025
Doing a PhD is - at heart - one long discussion with your mentor. The discussion changes over time - with unexpected turns and ups & downs - but through it all is a pair of people discussing a topic endlessly to make sense of it. PhD students: choose someone you like to talk to!
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WOinActie.bsky.social @woinactie.bsky.social · 04/12/2025
Toegeven dat de kwaliteit achteruit gaat is iets waarvoor bestuurders allergisch zijn. Zelfs het online onderwijs tijdens corona werd destijds minstens zo goed gevonden als wat we in de collegezalen en laboratoria doen…
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Max Planck Institute of Colloids & Interfaces (MPICI) @mpici.bsky.social · 01/12/2025
Monday blues no more with these online events by @comeincell.bsky.social (coordination: @dimovalab.bsky.social) · 8 Dec, 2pm CET: “Drugging #Condensates & Drug Discovery” Dewpoint workshop · 15 Dec 2pm CET: “Life in #Biotech” Dewpoint workshop tinyurl.com/39rpaf84 #CellBiology #Biophysics
comeincell.org
Events (Jul – Dec 2025) – ComeInCell
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Jacco @jaccodk.bsky.social · 01/12/2025
Goedkope Chinese producten overspoelen de wereld. Hoe moeten Europa en de VS daarop reageren? www.groene.nl/artikel/onev...
groene.nl
Goedkope Chinese producten overspoelen de wereld. Hoe moeten Europa en de VS daarop reageren?
De Chinese exportmachine is een wake-upcall voor economische beleidsmakers in de hele wereld. Importbarrières vormen niet het juiste antwoord. Wat dan wel?
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Paolo Crosetto @paolocrosetto.bsky.social · 12/11/2025
What is the most profitable industry in the world, this side of the law? Not oil, not IT, not pharma. It's *scientific publishing*. We call this the Drain of Scientific Publishing. Paper: arxiv.org/abs/2511.04820 Background: doi.org/10.1162/qss_... Thread @markhanson.fediscience.org.ap.brid.gy 👇
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Markus Deserno @markusdeserno.bsky.social · 08/11/2025
The “canonical” story how Rosalind Franklin got wronged by Watson and Crick inadvertently makes her look far less scientifically competent than she was (“She did not realize the significance of her own data!”). This article offers a much more nuanced account of what happened.
nature.com
What Rosalind Franklin truly contributed to the discovery of DNA’s structure
Franklin was no victim in how the DNA double helix was solved. An overlooked letter and an unpublished news article, both written in 1953, reveal that she was an equal player.
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Mikhail Kats @mickeykats.bsky.social · 04/11/2025
Coherence in optics is a really tricky topic for people. I feel like the language around it could be better/cleaner
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Nigel @nigelvs.bsky.social · 31/10/2025
Jetten 'wint' de verkiezingen en 'claimt' de zege na een 'spannende' 'race'. De 'exitpoll' was 'too close to call'. We zijn mentaal gekoloniseerd door de Amerikanen
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Steve Pressé @labpresse.bsky.social · 30/10/2025
Tracking has always been at the ❤️ of the scientific method, from planetary motion to single particles. Weiqing’s thesis intro on tracking was so beautiful we turned it into a perspective in JCP who then selected it as a #Scilight. Take a look! 😊 www.aip.org/scilights/tr...
aip.org
Tracing fluorescence tracking’s past, present, and future
Artificial intelligence and parallel computing could refine studies of the movement of single molecules inside cells.
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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 28/10/2025
New review on experimental datasets that can be used to benchmark protein force fields. And if that doesn’t tickle your fancy, the data can also be used to benchmark machine learning models for biomolecular structure and dynamics.
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Gijs Kaper @gijskaper.bsky.social · 28/10/2025
Klimaatverandering komt op verkiezingsdag toch nog in het nieuws vanuit Jamaica. Melissa staat in de top 10 sterkste orkanen ooit gemeten. Windkracht 13 (als dat bestond) in combinatie met tot wel 1 meter regen kan vanaf vannacht de westelijke helft van het eiland verwoesten, wordt gevreesd.
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Jacco @jaccodk.bsky.social · 07/10/2025
ls there a list of publishers who do this?
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Menno Voorwinde @bastapunt.bsky.social · 02/10/2025
Dit zou een stemwijzer moeten zijn:
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Jacco @jaccodk.bsky.social · 02/10/2025
Of een gat in de markt.
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NanoBubbles @nanobubbles.bsky.social · 29/08/2025
📢 Open Science Workshop on Detecting Errors and Misconduct in Science will be held in Nijmegen from October 20 to 23. Full workshop program will be available soon. 🔗 Register here (limited spots are available!): lnkd.in/eRKekCkh
An advertisement for Open Science Workshop titled Detecting errors and misconduct in science. The sheet includes photos of the organisers and logos of the funders.
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Journal of Cell Biology @jcb.org · 18/09/2025
Lipid droplets: Open questions and conceptual advances around a unique organelle. New review from Mike Henne (@hennelab.bsky.social), Emma Reynolds, and William: rupress.org/jcb/article/... #Biochemistry #CellMetabolism #LipidDroplets
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Dimova Lab @dimovalab.bsky.social · 03/09/2025
Check out this community comment in Nature Communications on biomolecular condensates! 🧪🔬 💧 The piece shows how condensates fundamentally change the study of biology, offering insights into cellular processes. A great resource for anyone in the field, especially newcomers. rdcu.be/eBqB3
rdcu.be
Current practices in the study of biomolecular condensates: a community comment
Nature Communications - The realization that the cell is abundantly compartmentalized into biomolecular condensates has opened new opportunities for understanding the physics and chemistry...
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André Nadler @nadlerlab.bsky.social · 21/08/2025
Out today in @nature.com: Together with the Honigmann, Shevchenko, Drobot and Hof labs, we present a general workflow for imaging the localization and transport of individual lipids in cells and mapping their metabolism. www.nature.com/articles/s41...
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Institut Pasteur Education @pasteuredu.bsky.social · 27/08/2025
🚨 Molecular Biology of the Cell – Pasteur Course 🧬 This 4-week course explores the molecular mechanisms of cellular life — from vesicular trafficking and cell division to autophagy, host-pathogen interactions, and tumor invasion. 🕰️Application deadline: Sept 15,2025 👉 Apply: bit.ly/47celmj
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Nikolai Slavov @slavov-n.bsky.social · 26/08/2025
Tools have long propelled discoveries: "𝑁𝑜𝑡ℎ𝑖𝑛𝑔 𝑡𝑒𝑛𝑑𝑠 𝑠𝑜 𝑚𝑢𝑐ℎ 𝑡𝑜 𝑡ℎ𝑒 𝑎𝑑𝑣𝑎𝑛𝑐𝑒𝑚𝑒𝑛𝑡 𝑜𝑓 𝑘𝑛𝑜𝑤𝑙𝑒𝑑𝑔𝑒 𝑎𝑠 𝑡ℎ𝑒 𝑎𝑝𝑝𝑙𝑖𝑐𝑎𝑡𝑖𝑜𝑛 𝑜𝑓 𝑎 𝑛𝑒𝑤 𝑖𝑛𝑠𝑡𝑟𝑢𝑚𝑒𝑛𝑡" Sir Humphry Davy Elements of Chemical Philosophy (1812)
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Jacco @jaccodk.bsky.social · 26/08/2025
Quite special indeed
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Jacco @jaccodk.bsky.social · 17/08/2025
Really nice example of why traps are useful:)
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Jeremy Berg @jeremymberg.bsky.social · 10/08/2025
My quote of the day So keep fightin' for freedom and justice, beloveds, but don't you forget to have fun doin' it. Lord, let your laughter ring forth. Be outrageous, ridicule the fraidy-cats, rejoice in all the oddities that freedom can produce. Molly Ivins
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Steve Pressé @labpresse.bsky.social · 12/08/2025
Can we learn motion models from post-processed tracks? 🧐 Not really 😢 Emission noise accounts for ~99% of the likelihood. TLDR: What you think is anomalous diffusion… might just be noise. 🤷‍♂️🤷‍♂️🤷‍♂️🤷‍♂️ 🔗 Read more in our latest preprint: arxiv.org/abs/2507.05599 #Biophysics
arxiv.org
How Easy Is It to Learn Motion Models from Widefield Fluorescence Single Particle Tracks?
Motion models (i.e., transition probability densities) are often deduced from fluorescence widefield tracking experiments by analyzing single-particle trajectories post-processed from data. This analy...
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Retraction Watch @retractionwatch.com · 29/07/2025
The Center For Scientific Integrity, our parent nonprofit, is hiring! Two new positions: -- Editor, Medical Evidence Project -- Staff reporter, Retraction Watch and we're still recruiting for: -- Assistant researcher, Retraction Watch Database
retractionwatch.com
Job opportunities at Retraction Watch
Here are our current open positions: Editor, Medical Evidence Project Staff reporter, Retraction Watch Assistant researcher, Retraction Watch Database Learn more about the Center for Scientific Int…
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Nanophotonic Systems Laboratory ETH Zürich @quidantsnsl.bsky.social · 29/07/2025
Can polarization-sensitive digital holography contribute to wide-field spectroscopic imaging of chiral samples? We answer this question in this new article! Big congrats to Rebecca Büchner, PhD student leading the project! www.nature.com/articles/s41...
nature.com
Wide-field spectroscopic imaging of optical activity - Nature Photonics
A wide-field microscope capable of simultaneously measuring circular dichroism and circular birefringence signals over wide fields of view of the order of hundreds of micrometres is demonstrated, addr...
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Maria Leptin @marialep.bsky.social · 23/07/2025
Very promising news on the next seven-year EU budget, with a proposed substantial increase for Horizon Europe including the ERC. We are analysing the other parts of this proposal in more detail. @Vonderleyen @EZaharievaEU research-and-innovation.ec.europa.eu/news/all-res...
research-and-innovation.ec.europa.eu
Horizon Europe 2028 - 2034: twice bigger, simpler, faster and more impactful
Research and innovation news alert: As part of the next long-term EU budget 2028-2034, the Commission is proposing to double the budget of the research and innovation framework programme to €175 billi...
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SPIE @spie.org · 24/02/2025
Introducing FASER, an #OpenSource Python software package designed to simulate optical microscope PSF using fully vectorial calculations: www.spiedigitallibra... #Neurophotonics
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the Node @the-node.bsky.social · 02/03/2025
Have you read the interviews in our 'No such thing as a standard career path' series? We hope these stories from #DevBio scientists show that many valid career paths exist 🛣️🎢 If you want to share your story, get in touch! #AcademicSky #SciSky
thenode.biologists.com
No such thing as a standard career path - the Node
Introducing a new careers interview series, featuring developmental biologists who have had vastly different career trajectories.
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Ulrich Schwarz @ulrichschwarz.bsky.social · 17/07/2025
📣Book alert📣 Finally out with Cambridge University Press: the book by Udo Seifert on "Stochastic thermodynamics". It comprehensively covers many topics, from an introduction to statistical physics to many special subjects such as reaction networks and active particles. Highly recommended 👍👍👍
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Prof Sarah-Jayne Blakemore @sjblakemore.bsky.social · 16/07/2025
I was explaining to my Ukrainian colleague the phrase ‘There’s no such thing as a free lunch’. She told me the equivalent in Ukrainian is ‘The only free cheese is in the mousetrap’ - which is so much better
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