iiinova — where your digital self keeps evolving

Reposted by Virginia Silio

Preprint is out! Our BakingTray software turns a 2-photon microscope into a serial-section tomography system for automated whole-organ imaging. ~€35k to convert an existing scope. 11 systems worldwide, >7,000 samples at SWC alone #neuroskyence #microscopy www.biorxiv.org/content/10.6...

A BrainSaw at the Max Planck Institute for Brain Research, Frankfurt. A Nikon 16x water-immersion objective on a 400 µm travel PIFOC allows for fast z-stacks. Samples are imaged and cut in the clear water bath. A Leica VT1000 vibratome is seen to the right with a mounted blade.

How BrainSaw works. Samples are embedded in an agarose block, which is glued to a slide and clamped into a water bath. The bath sits on a three-axis stage under a 2-photon microscope; the stage moves the sample for both tile scanning and slicing. The microscope images the exposed face of the block, the vibratome cuts off the imaged layer, and the cycle repeats until the samples have been fully imaged. Data are stitched automatically and are ready for downstream analysis. Logos below: BrainSaw (hardware), BakingTray (acquisition software), StitchIt (stitching).

Coronal section of an Sst-tdTomato mouse brain imaged on BrainSaw. tdTomato-expressing cells are shown in yellow, scattered through cortex and hippocampus; tissue autofluorescence is shown in blue.

Coronal section of a mouse brain with three neighbouring viral injections targeting layer 5 of V1, expressing mCherry (red), eGFP (green) and BFP (blue). The thick apical dendrites of the labelled neurons are clearly visible, as are their axons projecting to distant targets. Image credit: Alex Fritzl.

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Virginia Silio @virsicas.bsky.social · 16h

It’s as easy as showing the raw data next to the winning video, if AI was used just to colour it… what is the problem?

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Virginia Silio @virsicas.bsky.social · 30/09/2026

What a great meeting, of course I forgot to take photos…. @royalmicrosoc.bsky.social

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Virginia Silio @virsicas.bsky.social · 28/09/2026

Microscopy is so cool, you don't need AI to make it prettier!

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Virginia Silio @virsicas.bsky.social · 13/09/2026

I open this app, read numerous tweets about the world is ending, close the app. The never ending cycle…

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Reposted by Virginia Silio

London BioImage Interest Group @biig-ucl.bsky.social · 09/09/2026

Reminder for the first L-BIIG seminar of this seasone this Friday 11th September at 12pm at the LMCB! See how to join at tinyurl.com/london-biig

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Virginia Silio @virsicas.bsky.social · 30/08/2026

Exciting times for the BIIG!!!!

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Reposted by Virginia Silio

London BioImage Interest Group @biig-ucl.bsky.social · 17/08/2026

The BioImage Interest Group is expanding! London-BIIG is bringing together microscopists and computational scientists across UCL, Crick, KCL and Imperial. Follow us for updates on bioimage analysis talks (@LMCB & Zoom) as well as next year's networking event! 🔬🧫 #L-BIIG

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Virginia Silio @virsicas.bsky.social · 22/05/2026

There's a bit of a scandal about falsified WBs from antibody companies...are we talking about their immunofluorescence images next? Too early?

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Reposted by Virginia Silio

BrainGlobe @brainglobe.info · 18/05/2026

We've started an effort to bring every 3D (non-human) anatomical atlas that exists into BrainGlobe. Get in touch if there's an atlas we've missed, or you think there's a specific atlas we should prioritise. Read more in our blog: brainglobe.info/blog/the-sys...

brainglobe.info

The Systematic Atlas Packaging Project — BrainGlobe

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Reposted by Virginia Silio

Royal Microscopical Society @royalmicrosoc.bsky.social · 12/05/2026

We are very pleased to announce Prof. Paul Guichard and Dr. Virginie Hamel @centriolelab.bsky.social as joint winners of the RMS Award for Light Microscopy 🔬 👏 🏅 Huge congratulations to both! Read more about Paul and Virginie's achievements: www.rms.org.uk/resource/pro...

Prof. Paul Guichard (left) and Dr. Virginie Hamel both pictured smiling against a plain background. Head and shoulders images.

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BioImagingUK @bioimaginguk.bsky.social · 30/04/2026

A few spaces remain on our Bioimage Data Stewardship Workshop in Bristol (20 May)! 🔬 All other dates are fully booked so if you're interested, now's your chance. FAIR data principles | metadata standards | public repositories | train-the-trainer | £100 travel Link to Apply 👇

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BioImagingUK @bioimaginguk.bsky.social · 13/04/2026

🔬 UK researchers - funding is available to access world-class bioimaging facilities! The UK Bioimaging User Access Fund offers up to £5K for bioimaging or £2K for image analysis at 6 UK sites Open to PhD students, postdocs, technicians & PIs 📅 Next deadline: 31 Jul '26 👉https://shorturl.at/M2ckv

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Reposted by Virginia Silio

David Stansby @dstansby.bsky.social · 13/03/2026

The paper that sums up what I've been working on and running for the last three years was published this week 🎉 www.science.org/doi/10.1126/...

science.org

The Human Organ Atlas

The Human Organ Atlas provides open access to 3D images of human anatomy spanning whole organs to cellular scale resolution.

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Reposted by Virginia Silio

BioImagingUK @bioimaginguk.bsky.social · 06/03/2026

📢 UK RESEARCHERS - Ever wished you could try a completely different imaging approach on your sample but lacked access to equipment or funds? That's exactly what the Euro-BioImaging UK Node User Access Fund is for! Applications are open year-round, with 3 deadlines/yr: 📅 31 Mar | 31 July | 30 Nov

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Reposted by Virginia Silio

France-BioImaging @france-bioimaging.bsky.social · 03/03/2026

[OPPORTUNITY] France-BioImaging User Access Support is now open We are thrilled to launch our new access support scheme to provide financial support to users carrying out projects that require FBI-labelled technologies or services 🔗Info here: france-bioimaging.org/application/...

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Virginia Silio @virsicas.bsky.social · 03/03/2026

I'm from a generation in Spain where our grandparents lived through the civil war and WW2. We remember everything they told us about what they had to endure.

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Reposted by Virginia Silio

Journal of Cell Biology @jcb.org · 25/02/2026

Accessible minimal requirements for reproducible light microscopy. This viewpoint presents a community-endorsed checklist defining minimal light microscopy metadata to improve rigor, reproducibility, and transparency in research. rupress.org/jcb/article/... @quarep-limi.bsky.social

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Reposted by Virginia Silio

Royal Microscopical Society @royalmicrosoc.bsky.social · 11/02/2026

Happy International Day of Women and Girls in Science! #WomenInScience 🌍👩‍🔬🔬 We're dedicated to supporting equality in #microscopy, #imaging and #FlowCytometry - including maintaining a positive gender balance for speakers attending international events. Find out more: ow.ly/VbVw50YcIL4

Scientist in a white lab coat and blue gloves examining samples through a microscope in a laboratory setting.

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Virginia Silio @virsicas.bsky.social · 03/02/2026

Very interesting read, quite scary too

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Reposted by Virginia Silio

Dave Barry @david-j-barry.bsky.social · 02/02/2026

Did you know that if you are based in the UK, you can apply for funding to access #BioImageAnalysis services via the UK node of @eurobioimaging.bsky.social ? Next application deadline is March 31st! www.rms.org.uk/community/ne...

rms.org.uk

UK Bioimaging User Access Fund

Up to £5000 funding available to access imaging technologies and analysis services at the UK Node of Euro-BioImaging

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Reposted by Virginia Silio

Dave Barry @david-j-barry.bsky.social · 31/01/2026

AMAZING JOB OPPORTUNITY ALERT!!! @calm-stp.bsky.social is hiring a Data & Systems Steward! 🧬 🔹Manage #bioimage data & #OMERO admin 🔹Automate via #Python/#Bash 🔹Support #FAIR principles 🔹Work closely with @crick-ia-team.bsky.social ⏰ Deadline: 08 Feb 2026 Apply: www.crick.ac.uk/careers-stud...

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FocalPlane @focalplane.bsky.social · 24/01/2026

The next deadline for @jcellsci.bsky.social FocalPlane Training Grants is 20 February. These grants are open to early-career researchers in cell biology that require funding to attend a microscopy or bioimage analysis training course. www.biologists.com/grants/jcs-f...

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Reposted by Virginia Silio

British Society for Cell Biology @bscb-official.bsky.social · 22/01/2026

We are delighted to announce that @giuliapaci.bsky.social from @ucllifesciences.bsky.social has been awarded the 2026 BSCB Postdoctoral researcher medal You can read about Giulia's work on how tissues withstand mechanical stress here: bscb.org/postdoctoral...

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Reposted by Virginia Silio

Niko Sirmpilatze @nikosirmpilatze.com · 22/01/2026

Read the story behind the first @neuroinformatics.dev Open Software Week, in a series of blogposts for @softwaresaved.bsky.social The second edition will be even more awesome. Remember to apply by the end of January: neuroinformatics.dev/open-softwar...

neuroinformatics.dev

Open Software Summer School — NIU

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Reposted by Virginia Silio

Royal Microscopical Society Early Career Researchers @rmsearlycareer.bsky.social · 16/01/2026

Hello Bluesky! Calling all Early Career Researchers working in microscopy/image analysis or cytometry, want to gain recognition for your work and a chance to win a £100 cash prize? Just under a month to apply to our 2026 Early Career Award...

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Reposted by Virginia Silio

eurobioimaging.bsky.social @eurobioimaging.bsky.social · 16/01/2026

What's the #EuroBioImaging Scientific Ambassador Programme and how will it help you meet new people & learn new skills? Virginia Silio @virsicas.bsky.social provides some insights in this short video. If you want to join, apply by 🗓️ Jan 30! More⤵️ www.eurobioimaging.eu/scientific-a...

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Virginia Silio @virsicas.bsky.social · 10/01/2026

I need time to process this, but 43 miles, 7:18, second in my category

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Reposted by Virginia Silio

Guillaume Jacquemet @guijacquemet.bsky.social · 09/01/2026

I am looking for two postdocs to join our lab - One (bio)image analyst - One cell biologist interested to work on lymphatics! The positions will open soon, be in touch!

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Virginia Silio @virsicas.bsky.social · 17/12/2025

Is it for me is it for my daughter?… 🫣

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Reposted by Virginia Silio

Julia Sero @cellmorphosero.bsky.social · 04/12/2025

If you or your trainees are just getting started with image analysis of cells & are #CellProfiler -curious, here is a fairly thorough walk-through demo I did recently. Loading files, extracting metadata (fun with Regex!), identifying objects, measuring, filtering, QC, exporting: youtu.be/fO5nJdhj_7I

youtu.be

Introduction to CellProfiler - by a biologist, for biologists!

YouTube video by CellMorphoJSero

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Virginia Silio @virsicas.bsky.social · 03/12/2025

Managed a Christmassy pic of Osaka, worthy of sharing

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Reposted by Virginia Silio

Development @dev-journal.bsky.social · 02/12/2025

Apply for our Pathway to Independence (PI) programme, supporting postdocs in #devbio and #stemcell research during the transition to their first group leader position: www.biologists.com/grants/devel... Application deadline: 2 February 2026.

Pathway to Independence
Support postdocs on the job market
Line drawing of a person at a bench transitioning to working at a desk
Development

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Virginia Silio @virsicas.bsky.social · 29/11/2025

I had so much fun showing microscopy to kids today, thanks to Native Scientist, and all in my own language! Already looking forward to the next one.

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Virginia Silio @virsicas.bsky.social · 28/11/2025

is someone here using Opal 690? Pic not related as it's #FluorescenceFriday star-protocols.cell.com/protocols/37...

beautiful brain slice showing the ML and GCC (hipoccampus)

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Virginia Silio @virsicas.bsky.social · 26/11/2025

Back to reality after #CBIAS2025: two trainings today, a pile of analysis requests waiting in my inbox, and an experiment in a rush thanks to the pre-Christmas panic...

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Reposted by Virginia Silio

Damian Dalle Nogare @damiandn.bsky.social · 25/11/2025

Enjoying my new sticker courtesy of @helenajambor.bsky.social, who also gave an amazing talk today at cbias

A laptop with a sticker of a microscope that has the words "this machine kills fascists"

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BioImagingUK @bioimaginguk.bsky.social · 25/11/2025

🔬There are 2 weeks left for applications in this round! 🔬Next deadlines are 31 March, 31 July and 30 November 2026! 🔬DM us for any queries!

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Dave Barry @david-j-barry.bsky.social · 25/11/2025

BIOIMAGE ANALYSTS ASSEMBLE!!! #CBIAS2025

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