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Chad Hobson

@cmhobson.bsky.social
204 followers 286 following 22 posts

Opinions are my own. Aspiring biophysicist & microscopist | Senior Application Scientist at HHMI Janelia's AIC | MS/PhD UNC Physics

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Reposted by Chad Hobson
Anh Hoang Le, PhD 🏳️‍🌈🏴󠁧󠁢󠁳󠁣󠁴󠁿🇻🇳 @anhhle2702.bsky.social · 4h
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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Reposted by Chad Hobson
Melanie D. White @melaniedwhite.bsky.social · 22h
I spoke with @nature.com about the Nikon Small World controversy. As AI becomes part of scientific imaging, we need greater transparency about what was measured, inferred or generated. It's not about excluding AI. It’s about preserving trust in scientific evidence. www.nature.com/articles/d41...
nature.com
This award-winning microscopy image used AI — igniting controversy in a prestigious competition
Researchers say that using artificial-intelligence tools to visualize scientific images can become problematic when models misrepresent the underlying data.
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HHMI @hhmi-science.bsky.social · 28/09/2026
Our bodies create around 330 billion new cells every day through cell division. Andrew Moore at our Janelia Research Campus captured that process in stunning detail — a feat that earned him 4th place in Nikon's 2026 Small World in Motion Competition. bit.ly/4yT5d0k
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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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Chad Hobson @cmhobson.bsky.social · 18/09/2026
I spy vFLIM!! www.biorxiv.org/content/10.6...
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Melanie D. White @melaniedwhite.bsky.social · 11/09/2026
Happy #FluorescenceFriday! ✨ It's the glue that holds us together, but it looks like a pair of angel wings to me. 👼 This beautiful meshwork of extracellular matrix surrounds the developing tissues of a quail embryo, helping guide cells as they build the body. 📷 @wangjianxiong.bsky.social 🔬
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FocalPlane @focalplane.bsky.social · 04/09/2026
It’s #preprint list time! This week we focus on new research in bioimage analysis. Let us know if you have any suggestions for us to add to our list. focalplane.biologists.com/2026/09/04/m...
focalplane.biologists.com
Microscopy preprints: bioimage analysis - FocalPlane
Microscopy preprints: bioimage analysis - News
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Melanie D. White @melaniedwhite.bsky.social · 28/08/2026
Happy #FluorescenceFriday! 🔥 Neural crest cells are bringing the heat again! These migrating cells weave through the developing quail embryo, leaving beautiful patterns in their wake. 😍🧪🔬 📷 @siewzhuan.bsky.social 🔬
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Zebrafish Rock! @zebrafishrock.bsky.social · 27/08/2026
Some very cool applied methods in various organisms including #zebrafish 🐟 🔬 Check out the thread from @cmhobson.bsky.social for more goodies ⬇️
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Chad Hobson @cmhobson.bsky.social · 27/08/2026
A couple years in the making, but the preprint is finally out! We developed a pipeline for timelapse, volumetric FLIM (vFLIM) that incorporates multi-channel light sheet excitation, a SPAD array detector for widefield FLIM, and machine learning lifetime processing. www.biorxiv.org/content/10.6...
biorxiv.org
vFLIM: Machine Learning-enabled Light Sheet Fluorescence Lifetime Imaging
The lifetime of fluorescent molecules provides an orthogonal readout to fluorescence intensity, opening experimental possibilities of measuring changes in local molecular environments, mechanical tens...
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Reposted by Chad Hobson
bioRxiv Bioengineering @biorxiv-bioeng.bsky.social · 26/08/2026
vFLIM: Machine Learning-enabled Light Sheet Fluorescence Lifetime Imaging www.biorxiv.org/content/10.64898/20…
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bioRxivpreprint @biorxivpreprint.bsky.social · 26/08/2026
vFLIM: Machine Learning-enabled Light Sheet Fluorescence Lifetime Imaging www.biorxiv.org/content/10.64898/20…
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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.
vFLIM: Machine Learning-enabled Light Sheet Fluorescence Lifetime ImagingFigure 1Figure 2Figure 3
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Reposted by Chad Hobson
Rashmi Priya @rashmi-priya.bsky.social · 25/08/2026
A perspective in @natmethods.nature.com on Why forces are fundamental to understanding how life comes into being - by us, @campaslab.bsky.social @yanlanmao.bsky.social @sarawickstrom.bsky.social Miguel Concha, Alba Diz-Muñoz and @streichan.bsky.social www.nature.com/articles/s41...
nature.com
The physics of sculpting a living creature - Nature Methods
Cell biologists have long known that mechanical forces, such as tension and compression, influence tissue differentiation. Now, advanced methods are letting them observe and manipulate these forces in...
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Reposted by Chad Hobson
Journal of Cell Biology @jcb.org · 05/08/2026
Bharathan, Kowalczyk et al. provide the first comprehensive description of the 3D desmosome in A431 epidermoid carcinoma, human mammary epithelial cells, and airway epithelia in volume electron microscopy datasets. rupress.org/jcb/article/... #Adhesion #StructuralBiology
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Jesse Aaron @jesseaic.bsky.social · 31/07/2026
Always great fun doing the #IALSJanelia boot camp. Absolutely phenomenal group of participants!
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Rachel Lee, PhD @scientistrachel.bsky.social · 30/07/2026
As #IALSJanelia 2026 draws to a close, I want to express my gratitude as a co-organizer! The @aicjanelia.bsky.social team prepared & taught while @janeliaconf.bsky.social provided awesome support. We had an amazing group of participants and I cannot wait to see what they do next with microscopy! 🔬
A photo of a coffee mug. The foam in the mug has the words "IALS Janelia 2026" printed in coffee.
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Reposted by Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 30/07/2026
We are grateful to our teaching team and participants for a wonderful two weeks of intense microscopy and image analysis at #IALSJanelia 2026. Many thanks to the @janeliaconf.bsky.social team for the support that made this bootcamp possible!
A photo of a group of people. Two rows stand, while a front row kneels. Below the photo there is a caption listing the workshop name and dates.
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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 Chad Hobson
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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Chad Hobson @cmhobson.bsky.social · 29/07/2026
This was quite an exciting project that has been years in the making, hopefully we can open up light sheet microscopy to some new samples!
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Reposted by Chad Hobson
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 Chad Hobson
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 Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 27/07/2026
Today is super-resolution day at #IALSJanelia! We're spending the afternoon at the microscope exploring these beautiful tubulin networks🔬 Images by @harikrushnan.bsky.social
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Reposted by Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 24/07/2026
We are grateful to Paul Tillberg for stopping by to give #IALSJanelia 2026 participants a guest lecture on expansion microscopy, including a hands-on #ExM demonstration!
A photo of a conference room where attendees are sitting at rows of tables. At the front of the room, a man sits alone at a separate table with a document camera. A view of the samples he is manipulating is projected on the screen behind him.
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Reposted by Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 24/07/2026
How does resolution impact colocalization? This afternoon at #IALSJanelia participants are exploring the impact of imaging modality on measurements of co-occurrence and correlation.
A two-panel microscopy image. Both panels show mitochondria labeled for COX8 (green) and TOMM20 (magenta). The left panel shows an image taken on a widefield microscope, and most pixels are white (a merge of magenta and green). The right panel shows an image taken using lattice SIM.
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Reposted by Chad Hobson
Rachel Lee, PhD @scientistrachel.bsky.social · 25/07/2026
Lattice light sheet data taken by the participants of #IALSJanelia 2026, with guidance from @cmhobson.bsky.social. I rendered the actin dynamics using #AGAVE 🔬
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Reposted by Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 23/07/2026
This afternoon's imaging lab at #IALSJanelia is all about subcellular structures, highlighted here by myosin (white) and actin (orange). These membrane ruffles were captured on our lattice light-sheet microscope by @cmhobson.bsky.social
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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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Anja Schmidt @anjanja1024.bsky.social · 21/07/2026
Love imaging those cells :)
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Rachel Lee, PhD @scientistrachel.bsky.social · 21/07/2026
You have to love the diversity of shapes that these HL60 cells make! #IALSJanelia 2026
A montage of 4 images. Each image displays a 3D rendering of microscopy data in a different color. Each image is from a different time point of imaging the membrane of HL60 cells on a lattice light sheet microscope.
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Reposted by Chad Hobson
AIC at Janelia @aicjanelia.bsky.social · 21/07/2026
For our first live cell imaging lab of #IALSJanelia 2026, we're exploring the migratory behavior of neutrophil-like HL60 cells. Confocal microscopy by @anjanja1024.bsky.social 🔬
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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 Chad Hobson
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 Chad Hobson
Alfred Millett-Sikking @amsikking.bsky.social · 20/07/2026
Ultrafast 3D imaging just got faster! Introducing: "Instant dual-view Snouty (iDV-Snouty) light-sheet microscopy" -> Double the data rate of a Snouty microscope by adding a 2nd view! Use the extra view for a variety of imaging modes! Article here: amsikking.github.io/idv-snouty_l...
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AIC at Janelia @aicjanelia.bsky.social · 20/07/2026
This morning at #IALSJanelia we're getting started with some microscopy fundamentals in a lecture by @cmhobson.bsky.social 🔬
A photo of people in a conference room. A man stands at the front next to a large projector screen. The screen shows a presentation slide on image formation.
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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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Rachel Lee, PhD @scientistrachel.bsky.social · 17/07/2026
Microscopy beautifully reveals the dynamic nature of biology but quantifying that motion can be tricky! In the latest paper from @aicjanelia.bsky.social, out now in @jcellsci.bsky.social, we present a tool for measuring amorphous motion: OpticalFlow3D journals.biologists.com/jcs/article/... (1/7)
journals.biologists.com
OpticalFlow3D – a tool for measuring amorphous motion in three-dimensional fluorescence microscopy images
Summary: Biological motion can be difficult to define and measure. Optical flow is uniquely suited to this challenge. We provide tools for 3D optical flow and illustrate its use in extracting biologic...
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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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Teng-Leong Chew @scopeshifu.bsky.social · 15/07/2026
🧪 @aicjanelia.bsky.social and @scientistrachel.bsky.social have just published a new quantitative tool, OpticalFlow3D, for tracking amorphous motion in 3D. Try it out and let us know what you think! tinyurl.com/OpticalFlow3D
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Chad Hobson @cmhobson.bsky.social · 15/05/2026
I spy some light sheet microscopy at air-liquid interface 👀. Thanks for adding it to the list! www.biorxiv.org/content/10.6...
biorxiv.org
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Chad Hobson @cmhobson.bsky.social · 08/05/2026
#FluorescenceFriday again, this time looking at mitochondria in two cells inside of a spheroid model. Imaged on our MOSAIC with adaptive optics + LLSM. This AIC project was done with Marguerite Blignaut's group at Stellenbosch University.
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Society for Developmental Biology @socdevbio.bsky.social · 07/05/2026
✨ We are looking forward to hosting Isabel Espinosa Medina of HHMI Janelia Research Campus at #2026SDB in Las Vegas! Her work explores how the autonomic nervous system affects the development and homeostasis of different organs like the pancreas. 🔬 ✨#devbio
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epithelial mechanics fan club @epimechfc.bsky.social · 12/04/2026
How does an orbiting spherical tissue suddenly break symmetry and sprout invasive strands? We can predict this behavior from the initial morphology! Hi, I’m @jiwon-kim.bsky.social from @ianywonglab.bsky.social.
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Florian Jug @florianjug.bsky.social · 05/05/2026
It is finally out there in published form. 🎉 #MicroSplit (with an 𝕊) #Microscopy 🔬 #AI 🤖 www.nature.com/articles/s41... And no paywall... so... enjoy the read! 💸 👋 This is where the post could end... but I will have to go on for a bit below... 😉 🧵
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Zebrafish Rock! @zebrafishrock.bsky.social · 26/04/2026
Leukocytes in a zebrafish larva moving towards a pipette filled with a chemoattractant (arachidonic acid). Credit to @niethammerlab.bsky.social @mskcancercenter.bsky.social. #ZebrafishZunday 🧪
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Nature Methods @natmethods.nature.com · 01/05/2026
PinkyCaMP: a red genetically encoded calcium indicator with improved brightness and stability. @massecklab.bsky.social www.nature.com/articles/s41...
nature.com
PinkyCaMP: an mScarlet-based calcium sensor with enhanced brightness, photostability and multiplexing capabilities - Nature Methods
PinkyCaMP is a red genetically encoded calcium indicator with improved brightness and photostability. Derived from mScarlet, it does not exhibit photoswitching upon blue light illumination and is ther...
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Reposted by Chad Hobson
Yoseph Loyd @yosephl.bsky.social · 01/05/2026
The Krendel lab has been working investigating Myo1e/f’s involvement in cell eating. Here’s a fun video of our work collected with @aicjanelia.bsky.social. Thanks a ton for helping us with this and the amazing #LightSheet imaging! Take a look at our work: www.biorxiv.org/content/10.6...
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Chad Hobson @cmhobson.bsky.social · 01/05/2026
Happy #FluorescenceFriday, here is a macrophage engulfing a deformable particle imaged on our LLSM. This project from Mira Krendel's lab and the @aicjanelia.bsky.social just came out as a preprint today! www.biorxiv.org/content/10.6...
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