iiinova — where your digital self keeps evolving

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Alexandre Dumoulin @axonsalex.bsky.social · 12/09/2026

Can small extracellular vesicles guide growing axons?🧪 Our new preprint provides evidence that small extracellular vesicle (sEV) secretion regulates axon guidance at a key ventral midline choice point during spinal cord development. www.biorxiv.org/content/10.6... #neuroscience #EVs #axon

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The EMBO Journal @embojournal.org · 07/09/2026

Dynamic control of cell state transitions during tissue morphogenesis Elias Barriga et al @eliasbarrigalab.bsky.social review how gene expression, chromatin modifications & microenvironmental biophysical factors contribute to robust coordination of morphogenesis link.springer.com/article/10.1...

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epithelial mechanics fan club @epimechfc.bsky.social · 06/09/2026

Hi! I’m @vitoryang.bsky.social, a PhD candidate studying how cells migrate collectively during development. My work focuses on cytoskeleton dynamics and Rho GTPase signalling, using Drosophila border cells as a genetically tractable in vivo model.

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Sean Carroll @seanmcarroll.bsky.social · 29/08/2026

Ever wonder what "information" really means? Here's our new paper, led by @frosas.bsky.social, that lays out the multiple ways the term is used in natural science. rdcu.be/fCDGv

A chart describing four faces of information: Engineering, Statistical, Thermodynamic, and Ontological.

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Joachim Fuchs @joachimfuchs.bsky.social · 31/08/2026

I always find it amazing how much review figures or graphical abstracts change over time and with more understanding of the subject. If one slow-cooks instead of AI-generates figures that is.. 🧪🎨

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BioVoxxel (Jan Brocher) @biovoxxel.de · 30/08/2026

Only 5 days left to get the amazing Scientific Illustration Inkscape Masterclass at a reduced price. From zero to illustration hero in no time. Check it out myablefy.com/s/biovoxxel/...

myablefy.com

Scientific Illustration – Inkscape Masterclass for Life Scientists

Learn to create professional scientific illustrations using Inkscape. This BioVoxxel masterclass covers vector graphics, color theory, and 3D effects for life scientists.

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jmutterer.bsky.social @jmutterer.bsky.social · 28/08/2026

I've made a video about Fig_Space, the next version of FigureJ. It has nice new features, I hope you like it. youtu.be/bTKcXN4p-JM

youtu.be

FigSpace Fiji plugin demo

YouTube video by jerome mutterer

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Joachim Fuchs @joachimfuchs.bsky.social · 23/08/2026

How do molecular features of protein complexes allow cells to behave collectively? And what can we learn from collective cell migration in epithelial and mesenchymal cells to understand brain development? These questions motivated our recent review: doi.org/10.1515/hsz-... 🧪🔬🧠 1/10

Adherens junctions balance stability and motility: from cell morphogenesis to neural tissue patterning

Joachim Fuchs, Kawtar Cherkaoui and P. Robin Hiesinger

Published/Copyright: April 8, 2026

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Nikos Konstantinides @nkonst4.bsky.social · 14/08/2026

Calling the hive mind: Has anyone encountered an unusually high number of rDNA-associated reads in a 10x v4 scRNA-seq library? We have millions of reads mapping to Drosophila rDNA, multimapping/low MAPQ, with strong enrichment at specific rDNA regions. Curious if others have seen something similar!

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Joachim Fuchs @joachimfuchs.bsky.social · 23/08/2026

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Floris BOSVELD @florisbosveld.bsky.social · 21/07/2026

Doing a Master or PhD and interested in Developmental Biology? Join the free Institut Curie developmental biology course in beautiful Paris this fall! Great speaker lineup, check: training.institut-curie.org/courses/deve... Registration deadline Sept. 18 2026.

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Paul Francois @pfrancois.bsky.social · 14/07/2026

New paper 🧵 What if the "landscape" that guides cell differentiation isn't fixed, but is sculpted, in real time, by the very cells moving through it? We call this a 'sandscape' : grains of sand that carve dunes as they move, while the dunes' shape simultaneously steers where the grains go next.

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Johannes Hohlbein @hohlbeinlab.bsky.social · 19/06/2026

You might have heard about our GitHub repository on #OpenMicroscopy. I finally vibecoded a page that (a) allows to search all entries and (b) generates a new database as soon as items are added on GitHub: hohlbeinlab.github.io/OpenMicrosco... Check it out and comments welcome!

hohlbeinlab.github.io

Open Microscopy — Resource Index

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Helena Klara Jambor @helenajambor.bsky.social · 16/06/2026

😎 to have this out! --> stay tuned, this is a series about 📊#dataviz for #science 🧪

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Andrew Plested @andrewplested.bsky.social · 10/06/2026

Just a couple more days to get your application in! www.biologie.hu-berlin.de/en/groupsite...

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Reese Richardson @reeserichardson.bsky.social · 05/06/2026

The Thermo Fisher situation keeps getting worse. We've now collected 450+ problematic images presented as verification data in TF's antibody catalog. This includes: 🖌️ Dozens more images with duplications or painting 🖨️ Hundreds of blots that all share the same background (behold slideshow below)

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Philip Ball @philipcball.bsky.social · 30/05/2026

tl;dr: There never was a paradox of the organism. It was just a mistake about genes. But genetic conflicts do occur and are fascinating. This is also an invitation: if you like the selfish-gene idea, I'd love to hear why. What biological reality does the metaphor capture?

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Andrew Plested @andrewplested.bsky.social · 29/05/2026

I'm quite tempted! Plasmid cloning in the terminal. Amazing concept and execution from @atinygreencell.bsky.social Love it.... "A live spinner and poll counter prove the search is really running, and Cancel actually stops it." 😂 github.com/Binomica-Lab... #Python #bioinformatics

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Fran Bottanelli @franbottanelli.bsky.social · 21/04/2026

Exciting to see this out in its final form! Wonderful work led by @probablycarmen.bsky.social. Want to know why protrusions are better at initiating immune signaling in #Tcells? Look no further. Link to Carmen’s 🧵 on the preprint bsky.app/profile/prob...

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Nikos Konstantinides @nkonst4.bsky.social · 17/04/2026

Félix Simon's paper is out in its final form 😍 When we got into (extreme) detail in the temporal and spatial patterning of neuroblasts, Félix asked a simple question "sure, but how does this translate into neuronal cell fate?". www.nature.com/articles/s41...

nature.com

Spatial, temporal and Notch determination of terminal selector expression controls neuronal cell fate in the Drosophila optic lobe - Nature Neuroscience

The authors characterized the spatial origin of Drosophila medulla neurons, completing their previous characterization of the temporal and Notch origins of these neurons and allowing them to correlate...

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Jakob Rentsch @jakobrentsch.eurosky.social · 13/02/2026

New Hiesinger Lab paper! Melinda Kehribar et al. show how Flies preserve the spatial organization of visual input through axonal projections into the brain. A temporal gradient and two adhesive forces ensure a retinotopic map without a target-derived mechanism. #neurosky #neuroskyence #Drosophila

youtube.com

Target-independent retinotopy in Drosophila / Curr. Biol., Feb. 3, 2026 (Vol. 36, Issue 5)

YouTube video by Cell Press

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Berna Devezer @devezer.bsky.social · 13/02/2026

On the publication bias discourse, I regret that metascience has become a source of decontextualized, low-res, bean-counting-focused `science is in crisis' narratives. It is largely uncurious abt science, desperately lacking in theory & measurement. I'll quote a few takes I liked & add my thoughts🧵

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epithelial mechanics fan club @epimechfc.bsky.social · 31/01/2026

How do cells orchestrate themselves to achieve a directional movement as a group? Hi, I’m @sayukihirano.bsky.social. In this thread, I’ll highlight key mechanisms of how cells communicate with each other to perform directional collective migration.

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Needhi Bhalla 💅🏽 @needhibhalla.bsky.social · 15/01/2026

“adoption of AI in science presents what seems to be a paradox: an expansion of individual scientists’ impact but a contraction in collective science’s reach, as AI-augmented work moves collectively towards areas richest in data...

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Nikos Konstantinides @nkonst4.bsky.social · 10/01/2026

I am very happy (and a bit scared) to present to you what we have been working on over the last 4 years. This manuscript is exactly what I dreamt of when I started the lab and I could not be happier and prouder of the outcome!

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Lucien Hinderling @lhinderling.bsky.social · 07/01/2026

Won best thesis award with this video! 4 years of research and play in 3 minutes :') youtu.be/so0fPlK1-LM

youtu.be

Smart microscopy, computer vision, and controlling cells with light -- my PhD thesis in 3 minutes

YouTube video by Pertz Lab

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Hannah Haberkern @hannah-haberkern.bsky.social · 23/12/2025

📢 Join us, the Haberkern lab, @uni-wuerzburg.de for a postdoc studying neural circuit mechanisms of navigation. You’ll spearheading neurophysiology experiments on our brand new 2P! ⏳ Apply by 28th February 2026 Details: www.haberkernlab.de/docs/ENPostd... #neuroscience #academicjobs #postdoc

On the left, the image shows a schematic of a fly head, ring neurons and EPG neurons together with some calcium imaging frames. On the right is a photo of a fly on a ball in virtual reality and another schematic of a VR system.

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Jean-Yves Tinevez @jytinevez.bsky.social · 20/11/2025

We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji. It ships many new features, detailed below, but that are articulated around the following:

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Kai Murk @kaimurk.bsky.social · 12/10/2025

This #microscopymonday is a cleaning day. Watch how a #microglia cell mops up and phagozytoses debris and junk in a very messy neuronal co-culture. BTW, it was a proper cleaning job → the neurons made it and formed nice networks Phase contrast imaging started at DIV1. One frame per 20 min.

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Jean-Yves Tinevez @jytinevez.bsky.social · 07/10/2025

Job alert! We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? See also on the forum: forum.image.sc/t/research-e...

forum.image.sc

Research engineer in Bioimage Analysis for the researchers of the inIdEx FORMULA

Hi all We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? The position is in the Instit...

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Siân Culley @superresolusian.bsky.social · 29/09/2025

BioImage analysis friends - King's are recruiting for a full-time, permanent facility position! Come and work with fun microscopes and fun people (and me!) - please share! www.kcl.ac.uk/jobs/126345-...

kcl.ac.uk

Bioimage Analysis Specialist | King's College London

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eLife @elife.bsky.social · 07/09/2025

Reconstructing long-range axons from dense brain images is tough. This study introduces a novel method that separates axon identification from global statistical rules, showing big improvements over existing tools for mapping neuronal projections. buff.ly/OBKr9cM

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Lucien Hinderling @lhinderling.bsky.social · 21/08/2025

🔬🧠 Our paper on smart microscopy & the issue of interoperability! www.biorxiv.org/content/10.1... LONG THREAD WARNING: Smart microscopy uses real-time image analysis to automatically guide the acquisition or perturbation of the sample (closed feedback-control loop). Many applications exist:

Figure legend: Categories and capabilities of smart microscopy systems integrating real-time image analysis and feedback control. Top: Smart microscopy workflows can be classified based on the driving logic behind decision-making: Event-driven (reacting to rare biological events), Outcome-driven (using feedback-control to steer biological systems toward a desired state), Quality-driven (optimizing signal quality or imaging metrics), and Information-driven (guided by models that predict which measurements/perturbations will yield the most informative data). Middle: Central feedback loop between the microscope and an image analysis system, which continuously
exchanges images and commands to guide acquisition dynamically. Bottom: Key control actions enabled by smart microscopy: adjusting imaging modality (e.g. switching from brightfield to fluorescence, adjusting sampling rate), repositioning the field of view (e.g. tracking, drift correction), optimizing acquisition settings (e.g. adaptive optics),
and performing photomanipulation (e.g. FRAP, ablation, optogenetics).

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Lucien Hinderling @lhinderling.bsky.social · 21/08/2025

Automated optogenetic control of hundreds of cells in parallel. Each cell is individually steered, collectively acting as a "tissue printer". Preprint & code out! www.biorxiv.org/content/10.1...

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Yi-Jyun Luo @yjluo.bsky.social · 07/01/2025

Our bryozoan paper is out in @genomeresearch.bsky.social! Led by @tomlewin.bsky.social, we report genome shuffling across the phylum and synteny evidence for the Lophophorata hypothesis. Grateful to John Bishop @thembauk.bsky.social and the DToL project for sharing openly! doi.org/10.1101/gr.2...

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FlyBase @flybase.bsky.social · 15/08/2025

FlyBase needs your help! We ask that European labs continue to contribute to Cambridge, UK FlyBase, whereas US and other non-European labs can contribute to US FlyBase. For more information and how to donate: wiki.flybase.org/wiki/FlyBase...

wiki.flybase.org

FlyBase:Contribute to FlyBase - FlyBase Wiki

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Mark A. Hanson @hansonmark.bsky.social · 14/08/2025

A reminder you/your lab can support FlyBase at Cambridge through the following link. Every bit helps. Please share if you yourself can't donate. www.philanthropy.cam.ac.uk/give-to-camb...

philanthropy.cam.ac.uk

Drosophila Genetic Database

The Drosophila Genetic Database, FlyBase, is on the brink of collapse due to the sudden termination of the FlyBase NIH grant, which includes salaries for 5 literature curators based at the University ...

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Aki Vehtari @avehtari.bsky.social · 11/08/2025

Reminder that all three books I've co-authored are freely available online for non-commercial use (and the fourth will be, too)

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Pau Formosa-Jordan @pauformosa.bsky.social · 04/08/2025

Introducing five concepts from dynamical systems to decode developmental regulatory mechanisms, have a read! @perez-carrasco.bsky.social‬ @roederlab.bsky.social @mpipz.bsky.social This effort started in a morphogenesis meeting @kitp-ucsb.bsky.social‬ in 2023. journals.biologists.com/dev/article/...

Adapted from Fig. 1 from Kadiyala et al 2025.

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Jeremy Berg @jeremymberg.bsky.social · 27/07/2025

I read and re-read the paper and talked to some on the experienced editorial staff. My conclusion was that there were not sufficient reasons to retract the paper. The evidence was much weaker than was needed to fully support the claims. but this was true to some degree for many papers. 9/n

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Julia M. Rohrer @dingdingpeng.the100.ci · 16/07/2025

At this point, I might as well -- Here's an infographic showing different ways to include age as a predictor. The top shows two extremes, just as a plain old numerical predictor (imposes linear trajectory) vs. categorical predictor (imposes nothing whatsoever). And then three solutions in between!

Infographic illustrating different ways to model age.
First panel shows two "extreme" cases; including age as a linear numerical predictor (df = 1) or including age as a categorical predictor (df = number of years of age minus 1).
Second panel shows an intermediate solution in which age is categorized into broader bins (df = number of categories minus 1, here 5 - 1 = 4).
Third panel shows an intermediate solution in which age is included with a polynomial (df = degrees of freedom of the polynomial, here 4).
Fourth panel shows an intermediate solution in which age is modeled with the help of splines (df = degrees of freedom of the splines, here 4).

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Mark A. Hanson @hansonmark.bsky.social · 10/07/2025

The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field? That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience A 🧵 1/n

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Richard McElreath 🐈‍⬛ @rmcelreath.bsky.social · 09/07/2025

How can we reform science? I have some ideas. But I am not sure you’ll like them, because they don’t promise much. elevanth.org/blog/2025/07...

elevanth.org

Which Kind of Science Reform

What hope is there for science reform, if we can't agree on what to reform? Right now, principles are more important than practices.

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Matthew Kay @mjskay.com · 03/07/2025

These are the design guidelines I teach. From halfway through this deck: www.mjskay.com/presentation... These days (for academic vis) I'd add "ensure natural visual operations correspond to meaningful operations in data space". Need to make slides for that.

Some rough design guidelines*

1. Match effectiveness with importance
2. Avoid ambiguity
3. Locality is king / eyes beat memory
4. Establish viewing order
5. Layer, layer, layer
6. When in doubt, grid
7. Treat visual attributes like adjectives

* These guidelines are drawn largely from my experience + personal preferences + the literature.
Design is messy, these are not perfect, others will disagree with me, etc. Caveat emptor.

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The Transmitter @thetransmitter.bsky.social · 06/06/2025

The hunt for a soulmate can be hard work. Neurons in the developing Drosophila antennal lobe simplify the problem by turning a 3D search into a 1D one. By @callimcflurry.bsky.social #neuroskyence www.thetransmitter.org/developmenta...

thetransmitter.org

How developing neurons simplify their search for a synaptic mate

Streamlining the problem from 3D to 1D eases the expedition—a strategy the study investigators deployed to rewire an olfactory circuit in flies.

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Martin Weigert @maweigert.bsky.social · 06/06/2025

Out today in @natmethods.nature.com : Spotiflow, our transcript localization method for imaging-based spatial transcriptomics. Led by amazing PhD student @albertdm.bsky.social, joint work w @gioelelamanno.bsky.social at EPFL / @scadsai.bsky.social www.nature.com/articles/s41... rdcu.be/epIB7

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