iiinova — where your digital self keeps evolving

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 23/09/2026

What if any dataset, any size, any number of dimensions, opened in a browser tab from a link? 🔬🧪💻 Luxar is out today: write it in Python, share it as a link, explore it in any browser. Open source. 🧵 @biohub.org Preprint: doi.org/10.5281/zen... Code: github.com/royerlab/luxar

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Zebrafish Rock! 🎃 @zebrafishrock.bsky.social · 27/08/2026

“These findings reveal how Vangl2-dependent PCP signaling isdistributed across distinct cell types within a heterogeneous epithelium to generate opposing polarity outcomes and remains necessary to preserve tissue-level planar organization.” New from @adrianjacobo.bsky.social & (late) Hudspeth Lab 🐟

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hernanggarcia.bsky.social @hernanggarcia.bsky.social · 29/06/2026

Hope to see you all there!

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Biohub @biohub.org · 29/06/2026

What happens when physicists turn their tools on living systems? That's the question at the heart of the Physics of Life Symposium—and this year marks its fifth edition. Submit an abstract or register to attend by Aug. 14: bit.ly/4xJIPH7

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

This is how cc licenses operate today, but it doesn't have to be. We as authors decide which use cases are considered fair. You can choose if your license allows for comercial use, why not choose if it allows for it to be fed to AI models?

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

I don't think you need to make it ilegal, just make it very hard and make it clear that Biorxiv won't cooperate with those use cases. If Studios decided they don't like Rotten Tomatoes the site will cease to exist, no matter the legality of it.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

Imagine those in the 1% for this year having to worry about maintaining their status for every preprint they submit!

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

I agree, you can do more than that, you can block them from accessing your servers, add a clause to make it ilegal to rank paper that have opted out, etc. I love Biorxiv and the work you do, but you are not a passive observer, you are a steward of the content and have a say on how it gets accessed.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

I agree, if this doesn't change I'll probably start looking for other ways to preprint my work.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

And I don't think you need to change licenses to do this. Add a check box so that authors can opt out (or even better opt in) from being ranked by qed or any other clone that might show up, and prevent them from accessing those preprints.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

Ranking papers using unidimensional rankings is a flawed proposition and there's no amount of tweaking, disrupting or AI that will fix it. We should fight against the tirany of impact factors and glam journals, not trying to replace them by other, equally flawed, measures.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

From what I read on X it gave the impression that qed partnered with Biorxiv to do this, and if you knew this was coming it seems like a betrayal to the spirit of the license. I'm not talking about the legality of this, I'm saying that this is a breach of trust and against what Biorxiv stands for.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

Honesty, it feels like a bit of a betrayal on the part of Biorxiv and something that fair use licenses were not written to deal with. I think Biorxiv should have give the option to have preprints excluded from this type of rankings.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

There seems to be a high overlap between those who like qed and and those who received a good score or were selected for the 1%. I wonder how they'll feel when their next paper is scored low with no explanation or appeal.

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

If you ask your llm to identify the authors of annonimized preprints it wasn't trained on, how often does it get the last author and affiliation right?

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Adrian Jacobo @adrianjacobo.bsky.social · 25/06/2026

How do you know your algorithm is blind? And even more, how do you know it's unbiased?

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David Solecki @so-lets-kilab70.bsky.social · 05/05/2026

Hey y’all 👋 repost magic appreciated. The Solecki lab is recruiting multiple postdocs at St. Jude for a chromatin imaging project at the edge of live-cell imaging, neuronal cell biology, chromatin regulation, and quantitative image analysis. Ever dreamed of touring chromatin like this? We CAN 🔥

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Adrian Jacobo @adrianjacobo.bsky.social · 27/02/2026

Thank you for the shout-out! This is the thesis work of the brilliant @emilyatlas.bsky.social in Jim's lab. Sadly, Jim passed away before the work was finished, but his mentorship lives on in this work.

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

Give it a read! A big shout out to Nico, Brian, Sihao, Yuri, Caleb, and Holland. And to Jim, who is always in our hearts.

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

When several neuromasts are stimulated simultaneously, these patterns are encoded sparsely, and neurons separate patterns through nonlinear integration.

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

He found that neuromasts show no topographic organization in the hindbrain, yet neurons are highly discriminative of stimuli.

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

Nico and Brian built a single-objective lightsheet microscope along with an offset stimulation arm. That allowed Nico to play the lateral line "like a piano" and stimulate any combination of neuromasts he wanted.

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

It's also my first paper in Systems Neuroscience! So it was quite a ride!

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Adrian Jacobo @adrianjacobo.bsky.social · 09/12/2025

It's finally out! Our paper on optogenetic interrogation of the lateral line: www.cell.com/iscience/ful... This one involved a lot of sweat and tears, and it was a real tour de force. It was also the last paper we got to write with Jim, so it's a special one (and hence, the tears).

cell.com

Optogenetic interrogation of the zebrafish lateral line reveals brain-wide neural circuits involved in pattern separation

Zoology; Neuroscience; Sensory neuroscience

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The Company of Biologists @biologists.bsky.social · 20/11/2025

Thank you to organisers Alex Dunn, @zevgartner.bsky.social, @adrianjacobo.bsky.social and Matthew Kutys and everyone who joined us for our Workshop on New Technologies for Studying and Reprogramming Development. #BiologistsWorkshops biologists.com/workshops

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Christian Mosimann @chrmosimann.bsky.social · 19/06/2025

PSA: around 5-8% of the population has a color vision impairment for red/green. Many talks at #2025ICDB still use red-green LUTs on slides that are not accessible to everyone. Changing to more accessible colors is doable and easy. We can do better. #devbio #ICDB2025 #WeTheColorBlind

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Stephanie Woo @itsthewoolab.bsky.social · 03/06/2025

Website is now open for registration and abstract submission! See you in beautiful SLO! 😎🏖️ www.sdbonline.org/wcsdb2025

sdbonline.org

Society for Developmental Biology | 2025 SDB West Coast Regional MeetingSociety For Developmental Biology

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Zebrafish Rock! 🎃 @zebrafishrock.bsky.social · 16/04/2025

Published 40 years ago, Metcalfe et al. were first to fully characterize the lateral line (a series of sense organs on skin that detect water flow) in #zebrafish larvae. Included within this seminal piece are meticulous hand-drawings that are commonly found in Kimmel's papers. #ZebrafishFunFacts 🧪

A. Neuromast of a live zehrafish larva. This is the first neuromast ipsilateralof the dorsal line viewed with Nomarski optics. Kinocilia (K) project into a gelatinous cupula (C) from hair cells (HC). Credit to Metcalfe et al. 1985

Composite drawing of labeled efferent and afferent neurons. HRP was applied to a lesion of the midbody line branch of the right posteriorlateral line nerve (PLLn). The Irsim did not include the dorsal (D) oroccipital(0) branches. Labeled affercnt neurons of the posterior lateral lineganglion (PLLg) terminate in the hir:dbrain (PLLt). Three types of neurons (RELL, ROLE, and DELL) project axons into the posterior lateral line nerve. Only a single cell of each type is shown. This is a composite drawing traced from two preparations sectioned in the horizontal plane. Scale bar = 50 um

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The Company of Biologists @biologists.bsky.social · 23/04/2025

One month left for ECRs to apply for a funded place at our Workshop 'New Technologies for Studying and Reprogramming Development' organised by Alex Dunn, @zevgartner.bsky.social , @adrianjacobo.bsky.social and Matthew Kutys. 📆Apply by 23 May biologists.com/workshops/no... #BiologistsWorkshops

Workshop
New Technologies for Studying and Reprogramming Development

Organisers: Alex Dunn, Zev Gartner, Adrian Jacobo and Matthew Kutys

Early-career researchers apply for funded places

16-19 November 2025
Buxted Park, East Sussex, UK

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Flora Rutaganira @frutag33.bsky.social · 21/04/2025

Hello Community! Are you a postdoc/grad student preparing to launch a faculty search? Do you have a track record of excellence in research, leadership, mentorship & community engagement? Apply to the 2025 Next Generation Faculty Symposium: www.berkeleystanfordnextgensymposium.com! Pls repost! (1/3)

Flyer for the 2025 Next Generation Faculty Symposium (including QR code in top right corner). This symposium highlights the work of exceptional early-career scientists in the broad field of quantitative biological and biomedical sciences, with a track record of excellence in research, leadership, mentorship, and community engagement. These early career scientists are preparing to launch a faculty search. Applications are due May 30th, 2025.

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 15/04/2025

This role sits at the intersection of molecular biology, advanced microscopy, and computational analysis. Ideal candidates have a recent PhD and strong expertise in FISH techniques, RNA handling, and probe design. Join us in creating comprehensive spatial maps of developing vertebrate organisms!

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 15/04/2025

🧬🔬🧪 We are seeking a Scientist to push the limits of spatial transcriptomics in zebrafish! Come join us! #MolBio #SpatialTranscriptomics #DevelopmentalBiology #ScienceJobs 🧫🐟🔍 job-boards.greenhouse.io/chanzuckerbe...

job-boards.greenhouse.io

Scientist, Spatial Molecular Cartography (Jacobo/Royer Group - Biohub SF)

San Francisco, California, United States

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The Company of Biologists @biologists.bsky.social · 11/04/2025

Early-career researchers can apply for a funded place at our Workshop 'New Technologies for Studying and Reprogramming Development' organised by Alex Dunn, @zevgartner.bsky.social , @adrianjacobo.bsky.social and Matthew Kutys. 📆Apply by 23 May biologists.com/workshops/no... #BiologistsWorkshops

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Adrian Jacobo @adrianjacobo.bsky.social · 14/02/2025

You say port, I say backdoor, tomeito, tomahto

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Adrian Jacobo @adrianjacobo.bsky.social · 14/02/2025

Ese es el puerto que usa el gobierno chino para espiarte

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Harmit Singh Malik @harmitmalik.bsky.social · 28/01/2025

If you have been affected by the fires in LA, or are concerned about your ability to keep precious Drosophila strains going during the latest funding crisis, we will host your strains as a backup. Please email me. Please amplify. If you are also able to host fly strains, add your name as well.

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Adrian Jacobo @adrianjacobo.bsky.social · 22/01/2025

No es un loop, es una espiral descendiente!

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Adrian Jacobo @adrianjacobo.bsky.social · 13/01/2025

Did they miss the part when neoliberals in the 70s and 80s where right-wing fascists supporting every dictatorship that would implement their economic wet dreams?

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Adrian Jacobo @adrianjacobo.bsky.social · 23/12/2024

Yo me sentí en casa cuando el tipo tuvo que aclarar 3 veces que no iban a dejar subir a nadie en un grupo que no fuera el suyo.

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Adrian Jacobo @adrianjacobo.bsky.social · 23/12/2024

Estaremos en el mismo vuelo? MIA - EZE?

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Prisca Liberali @priscaliberali.bsky.social · 16/12/2024

We have a new opening! Amazing environment colleagues and facility! Join us!

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Teun Huijben @teunhuijben.bsky.social · 15/12/2024

Happy to be in sunny☀️San Diego for ASCB Cell Bio! Tomorrow I will present #Ultrack and #inTRACKtive (poster B513) at 11:15 am. Swing by the CZI+@czbiohub.bsky.social booth (#119) for live demos of these tools + #napari & #zebrahub 🐠 Looking forward to connect!🤩🧪🔬 #CellBio2024 #ASCB24 #celltracking

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