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Marie Held @makaefer.bsky.social · 02/08/2025

Long awaited annual leave commencing

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Marie Held @makaefer.bsky.social · 06/05/2025

If you see this, post the most recent photo of yourself from your camera roll. No cheating!

Image of a smiling, brunette woman with dark green glasses, short hair and a story jumper.

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And just like that it’s all over. @zech-lab.bsky.social wrapping up the first Celldiscoverer 7 user group meeting hosted by @cci-liv.bsky.social part of @livuni-livsrf.bsky.social & @zeiss-microscopy.bsky.social Exciting, stimulating, fun meeting w lots of interesting discussions, knowledge exchange

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Different options to address the monstrous amount of data created by @zeiss-microscopy.bsky.social equipment #CD7-UGM inclusion Arivis Pro, Arivis Cloud and Arivis Hub.

Last talk of the event by Alan Kidger from @zeiss-microscopy.bsky.social #CD7-UGM

Summary: The CD7 is central for the more advanced imaging says. Certainly harnessing a lot of AI tools #CD7-UGM

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Another industry presentation showcasing the usage of the Celldiscoverer 7 within a commercial context. Presenter is James Dodgson from @astrazeneca.bsky.social #CD7-UGM

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Lots of useful features on the machine but there’s also lots to teach. However, opening the doors to new experiments and new workflows for users. #CD7-UGM ready correlative imaging widefield/LSM built in.

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Next up, a double act from @uniofnottingham.bsky.social presenting their experience imaging across scales on their two CD7 machines #CD7-UGM

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Reproducible imaging with minimised number of black pixels through guided acquisition. Low magnification overview image, detecting objects via analysis pipeline followed by detailed imaging of detected objects, e.g. though LSM. #CD7-UGM

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Staining with a panel of dyes; imaging and analysis within the Zeiss ecosystem #CD7-UGM

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We have lift off on day 2 of our #CD7-UGM kicking off with a presentation of Volker Döring from @zeiss-microscopy.bsky.social Talking about Advanced workflow for CD7 - from cell profiling to 3D cell Culture screening.

The model does the heavy lifting sifting through a massive haystack of needles and less identified events need to be checked by the human in the loop. #CD7-UGM there are some patterns to be recognised within the populations of false positives. But also, what is truly binary in biology?

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Manual annotation is time consuming and not feasible for high throughput. Fluorescent probes also have negative side effects, mo channels mo problems. Also a lot of drugs are {highly} fluorescent. #CD7-UGM AI to scale up rare event detection? Also scalable and sustainable? A big task…

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Proliferation, that does not take cell death into account. #CD7-UGM Added bu bonus with DAPI: quick and dirty cell cycle staging.

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Next up @cellmorphosero.bsky.social talking about quantification of cell cycle dynamics, high throughput style: stain the nuclei and count them? You - hopefully- know how many cells you’ve put in at the beginning. As always in science - it depends … #CD7-UGM cell counts to calculate cell …

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From cells to whole organisms - zebrafish - the microscope does most of the work. #CD7-UGM the ultimate aim is to count septin cages within different cell types within the fish.🐟 🔬🧑‍💻 currently tracking infection of transgenically fluorescently labelled cells and shigella.

#CD7-UGM, CD7 with Airyscan was transformative for the lab’s work for screening compounds.

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Session 2 starting now with @sergemostowylab.bsky.social zooming in from London to the first #CD7-UGM presenting his work on Shigella. The room is nicely filled with attendees

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Questions to the room #CD7-UGM: As trainers, how can we improve the new user experience?

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Next up one of our own, @cci-liv.bsky.social imaging technician Tom presenting our experience of new user training, highlighting two case studies #CD7-UGM

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Controls are important. And prove that the trained models are distinguishing dying and proliferating cells. #CD7-UGM Comparing imaging to standard assays shows that imaging is faster, has more functionally relevant readout, I.e. dying cells can also be imaged.

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Followed by Jamie Lee from @astrazeneca.bsky.social focussing on identifying cell toxicity in label free images. #CD7-UGM

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Image analysis on the way harnessing open source packages to identify individual cells which is imperative to measuring their shape, keyword “moments” to describe detail about shapes. #CD7-UGM, up to 80 shape parameters per object.

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Lots of things to like about the “equipment of the hour” #CD7-UGM Archie from Hiscox lab has a computational biology background and learned all the microbiology, imaging and image analysis. He’s been busy 👨‍🎓

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Now Archie Harding is presenting his PhD project which involves morphological changes in CEOs using AI to identifying cells exposed to hazards and his big plans for the CD7 embedded in a class3 lab #CD7-UGM

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