iiinova — where your digital self keeps evolving

Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 09/10/2026

We enjoyed having Jemma Webber's team here at Janelia to work on training custom FIB-SEM segmentation models!

A photo of a group of people standing outside. There are four people in the foreground, with a pond, blue sky, and a red statue behind them.

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Reposted by Anja Schmidt

Anh Hoang Le, PhD 🏳️‍🌈🏴󠁧󠁢󠁳󠁣󠁴󠁿🇻🇳 @anhhle2702.bsky.social · 02/10/2026

Happy #FluorescenceFriday. Single immune cell migration is fascinating. But these cells can also behave like a coordinated collective, like 🐝 from a hive. I captured some embryonic myeloid cells (🔴) displaying swarming behaviour in a migrating ectoderm cell sheet (🔵), like neutrophils in our body!

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Anja Schmidt @anjanja1024.bsky.social · 23/09/2026

This is very well phrased, thanks. It would be so much less embarrassing for Nikon if they took responsibility. They're handling this very very badly.

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Reposted by Anja Schmidt

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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Anja Schmidt @anjanja1024.bsky.social · 23/09/2026

So if my AI dreams up organelles in post processing... It's okay? 🙄

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AI x Bio Discovery @aixbiobot.bsky.social · 26/08/2026

vFLIM: Machine Learning-enabled Light Sheet Fluorescence Lifetime Imaging [new] This pipeline makes live, long-term, high-speed volumetric imaging of molecular environments, tension, and metabolism feasible.

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Reposted by Anja Schmidt

Stefan Luschnig @luschnig.bsky.social · 04/08/2026

Interested in using #Drosophila genetics & advanced imaging combined with modeling to study inter-organ transport and epithelial dynamics? We’re hiring a #PhD student @uni-muenster.de, based at the Multiscale Imaging Center and @sfb1348.bsky.social Graduate School. Apply here tinyurl.com/ypx74a5d

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 30/07/2026

During the final group project at #IALSJanelia, participants are combining their knowledge of light sheet microscopy, large data handling, and tracking to measure macrophage motion in a zebrafish tail. The data shown here was taken on our SiMView microscope by @anjanja1024.bsky.social.

Color visualization of microscopy data. Each color corresponds to a point in time, ranging from 0 hours (purple) to 12 hours (yellow). The structures in the image correspond to macrophages in a zebrafish tail.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 29/07/2026

We're discussing the pros and cons of approaches for increasing imaging depth at #IALSJanelia. One benefit of two-photon microscopy (2P) is label-free second harmonic generation (SHG). Here SHG (purple) reveals structures surrounding macrophages (teal) in a zebrafish tail.

A microscopy image with macrophages (teal cells) and second harmonic generation (purple fibers).

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Reposted by Anja Schmidt

Teng-Leong Chew @scopeshifu.bsky.social · 28/07/2026

🧪 Want to image specimens that require air-liquid interface on a microscope with water-dipping lenses such as the lattice light sheet system? @aicjanelia.bsky.social, @cmhobson.bsky.social and TokaiHIT have just made that a reality. Check out our new paper: www.nature.com/articles/s44...

nature.com

Adapting upright light sheet fluorescence microscopy for imaging at air-liquid interface - npj Imaging

npj Imaging - Adapting upright light sheet fluorescence microscopy for imaging at air-liquid interface

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 28/07/2026

Continuing our discussion of super-resolution techniques, our morning lecture at #IALSJanelia focused on analysis of localization microscopy data. Tessellation of this iPALM dataset reveals not only the boundary of the focal adhesion, but also internal structure within.

Visualization of a tessellation of point coordinates. White lines indicate the boundaries of the tessellation, while color indicates the area of the tessellation region (blue = large region, yellow = small region).

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Reposted by Anja Schmidt

Rachel Lee, PhD @scientistrachel.bsky.social · 27/07/2026

Today at #IALSJanelia, we're exploring super-resolution. This includes spending time at @aicjanelia.bsky.social's iPALM system, where participant are exploring tubulin networks (purples) and focal adhesions (light blue) at the ~20 nm scale! iPALM data by @anjanja1024.bsky.social

A 3D rendering of iPALM microscopy data. A network of tubulin (purple fibers) lays on top of focal adhesions (blue blobs).

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 22/07/2026

During our first analysis lab at #IALSJanelia 2026, participants are exploring #TrackMate. How do tracking challenges (and advantages) change when you image different parts of the cell? Do you get the same results from different labels?

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AIC at Janelia @aicjanelia.bsky.social · 21/07/2026

We're exploring Fourier transforms at #IALSJanelia. In addition to applying them computationally in #Fiji, we're performing them optically with the help of a @thorlabs.bsky.social optics kit run by @cmhobson.bsky.social!

A photograph of optics equipment on a table. The Fourier pattern is projected onto a white piece of paper, while the image pattern is seen in the upper right corner of the photo.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 21/07/2026

This morning at #IALSJanelia, we're jumping into image analysis with #FIJI / #ImageJ! Our practical exercises on image filtering include comparisons of denoising approaches.

A man sitting at a table looks at his laptop. The laptop shows an image of a clown that has been overlaid with noisy speckles.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 19/07/2026

We're kicking off #IALSJanelia 2026 with a keynote lecture by @scopeshifu.bsky.social. Our teaching team is excited to get to know all our participants and start two weeks of talking about microscopy! 🔬

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AIC at Janelia @aicjanelia.bsky.social · 07/07/2026

Despite its nebula-like qualities, this image is from the microscopic rather than astrophysical scale. This adherent cell was labeled for focal adhesions (blue structures) and actin (orange fibers). It is one of the many samples the team is hard at work preparing for #IALSJanelia 2026!

An image taken on a microscope of a single adherent cell. Two images were combined in this visualization: an image taken with widefield illumination (orange colors) and an image taken using TIRF (blue colors). Together these colors highlight fibers of actin and elongated focal adhesion structures.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 07/07/2026

We enjoyed having Wenting Zhao and team here to take data on our iPALM system with @anjanja1024.bsky.social and wish them happy data analyzing!

A photo of a group of women standing in front of a staircase.

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Anja Schmidt @anjanja1024.bsky.social · 23/02/2026

Still one of my favorite data sets! Congratulations Laura!

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Reposted by Anja Schmidt

Zebrafish Rock! 🎃 @zebrafishrock.bsky.social · 01/02/2026

Dynamic actin waves in a zebrafish embryo. Credit to @aaandmoore.bsky.social & Dvir Gur. #ZebrafishZunday 🧪

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 15/12/2025

Getting started with analysis can be daunting, especially given the many tools available. In our latest @focalplane.bsky.social post, @scientistrachel.bsky.social & Owen Puls discuss framing analysis questions to extract informative biological information. focalplane.biologists.com/2025/12/15/h...

focalplane.biologists.com

How do I get started with image analysis? - FocalPlane

How do I get started with image analysis? - AIC at HHMI Janelia

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 07/11/2025

One last Bob's coffee break at @hhmijanelia.bsky.social before our final #InsightFromImaging activity: Participants are working in groups to formulate a hypothesis and design an imaging experiment to test it 🔬

A photo of a coffee mug. The mug is labeled with writing that says "hhmi | janelia Research Campus." The drink in the mug has the words "Insight From Imaging 2025" printed on the foam.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 07/11/2025

For our final lecture at #InsightFromImaging 2025, @jesseaic.bsky.social is discussing electron microscopy and correlative approaches, including results from our FIB-SEM system, which can achieve 4 nm resolution in 3D!

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 06/11/2025

We spent the afternoon at #InsightFromImaging in the lab exploring 5 different microscopes (& 5 different samples!) to understand approaches for imaging depth. Kidney slice prep by Ellen, imaged by Jenny using 2P (green tubulin) + SHG (magenta), viz by @scientistrachel.bsky.social in #AGAVE

A 3D rendering of microscopy data. Fluorescently labeled tubulin is shown in green, while second harmonic generation is shown in magenta.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 06/11/2025

Today at #InsightFromImaging we're focusing on imaging depth, starting with a lecture by @cmhobson.bsky.social. Adaptive optics (available on our MOSAIC system!) can improve deep imaging, as shown by these mitochondria in a zebrafish embryo.

A microscopy image with text annotation. The left side of the image is labeled "System Correction Only" and shows blurry and aberrated mitochondria. The right side of the image is labeled "Adaptive Optics + Deconvolution" and shows a clearer image of mitochondria.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 05/11/2025

This morning at #InsightFromImaging we focused on particle tracking. After a lecture by @jesseaic.bsky.social, participants split into groups to use #TrackMate to track our HL60 migration data from yesterday, followed by presentations on their results 📈

A collage of photos, which show people analyzing images and giving presentations.

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Rachel Lee, PhD @scientistrachel.bsky.social · 04/11/2025

HL60 cells take on so many fun shapes as they migrate! This #InsightFromImaging data features cells prepared by Leanna and imaged on the @aicjanelia.bsky.social LLSM by @cmhobson.bsky.social

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 04/11/2025

Continuing our speed theme at #InsightFromImaging, we spent the afternoon at the microscope exploring imaging speed, as well as tradeoffs in imaging scale. Video featuring imaging of neutrophil-like HL60 cells on a widefield vs the AIC's LLSM.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 04/11/2025

Today's theme at #InsightFromImaging 2025 is imaging speed. We're kicking things off with a lecture by Chad Hobson.

A photo of a classroom. A man stands at the podium next to a projector screen. The audience sits at tables in front of the screen.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 03/11/2025

For our first #InsightFromImaging lab, we're exploring imaging resolution across a variety of microscopy systems. When is increased resolution really necessary? What trade-offs does it require?

A microscopy image of a cell labeled for actin (magenta) and paxillin (green). The left half of the image is taken in widefield mode, while the right half is taken in confocal mode. The scale bar is 10 um.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 03/11/2025

This morning at #InsightFromImaging we jumped into hands on image analysis activities, including comparing the pros and cons of imaging denoising approaches

A photo of a classroom. There is a projector screen at the front of the room, and participants sit at tables with laptops performing image analysis tasks.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 02/11/2025

We're kicking off #InsightFromImaging 2025 with a keynote lecture by @scopeshifu.bsky.social on advanced microscopy and the resources available through the Advanced Imaging Center's visitor program 🔬

A photo of a man giving a presentation. He is standing in front of a projector screen. In the front of the photo, the audience sits at long tables.

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Reposted by Anja Schmidt

Rachel Lee, PhD @scientistrachel.bsky.social · 31/10/2025

When #FluorescenceFriday falls on Halloween, we break out the spooky data 👻 Here we are looking at the blood vessels of a zebrafish through its eye 🎃

A 3D rendering of microscopy data. The structure of a fish is visible in gray while green blood vessels are visible through the eye.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 31/10/2025

Wishing everyone a happy #FluorescenceFriday and a #HappyHalloween! This expansion microscopy visualization of blood vessels in a zebrafish is the result of a collaboration between Ellen, Jenny, @nicolasdenans.bsky.social, and @scientistrachel.bsky.social.

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 27/10/2025

Our team is hard at work preparing for #InsightFromImaging 2025! We can't wait to welcome HHMI #HannaGrayFellows to @hhmijanelia.bsky.social next week for lectures, hands-on labs, and activities focused on designing informative and quantitative bioimaging experiments 🔬

A microscopy image of a cell stained for actin (magneta color) and focal adhesions (green color).

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Anja Schmidt @anjanja1024.bsky.social · 10/10/2025

That was challenging and big fun! Safe travels home!

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 26/09/2025

Today we're wrapping up 3 weeks of zebrafish imaging on our MOSAIC system. We've enjoyed having Lisa and Miray of @annamolofskylab.bsky.social here and wish them safe travels home!

A photo of a group of people standing in front of scientific equipment.

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Reposted by Anja Schmidt

Nicolas Denans @nicolasdenans.bsky.social · 19/09/2025

The WB-ExM protocol described here works with.... every sample we tested! Here a 3do quail embryo (white= pan-protein; red=MF20) www.biorxiv.org/content/10.1...

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Anja Schmidt @anjanja1024.bsky.social · 06/09/2025

Another three imaging-packed weeks :) it was a pleasure working with you.

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Anja Schmidt @anjanja1024.bsky.social · 01/07/2025

My first SiMView project and it was such a fun one. Especially working with my favorite organism :) there is never anything wrong about staring at developing Drosophila in 4D!

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Anja Schmidt @anjanja1024.bsky.social · 06/06/2025

Our deadline is coming up soon :)

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Reposted by Anja Schmidt

AIC at Janelia @aicjanelia.bsky.social · 20/05/2025

Less than one month left to apply for our current call for proposals (deadline June 16)! Reach out to our team for a free technical consultation before proposal submission. Learn more at www.aicjanelia.org/apply 🔬

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