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Stephan Preibisch @preibischs.bsky.social · 9h

ha ha, not yet ;)

Stephan Preibisch @preibischs.bsky.social · 9h

The connectome of the entire male Drosophila central nervous system is out!! Acquired using FIB-SEM @ 8x8x8nm, we aligned 7.5 mio 2D images aligned into one seamless 3D volume, which was used to segment & proofread neurons and synapses. @hhmijanelia.bsky.social

www.biorxiv.org/content/10.1...

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Reposted by Stephan Preibisch

Misha Ahrens @mishaahrens.bsky.social · Sep 8

Preprint -
Excited to present WHOLISTIC, which extends the concept of whole-brain functional imaging to the entire body. Pioneering work by incredibly talented Virginia Ruetten @vmsruetten.bsky.social, this platform reveals whole-organism cellular dynamics in vivo.
www.biorxiv.org/content/10.1...

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Reposted by Stephan Preibisch

Philip Hubbard @philiphubbard.bsky.social · Jul 23

What does a neural network look like? Maybe like this view of Larissa Heinrich's U-net for organelle segmentation, with edges between layer inputs and outputs.

Want to help build networks like this? Join #HHMIJanelia's new AI initiative as a data engineer:
hhmi.wd1.myworkdayjobs.com/en-US/Extern...

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Reposted by Stephan Preibisch

mesoSPIM: Clear Images. Big samples. Open source. @mesospim.bsky.social · Jun 12

🎉 Call for Abstracts! 🎉
We’re celebrating 10 years of #mesoSPIM #opensource initiative – join us at the symposium for talks, demos & posters on open-source light-sheet microscopy, tissue clearing, and imaging!
Dates: October 13-15, 2025
Location: Zurich, Switzerland
Registration: ema.uzh.ch/R7YRN

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Reposted by Stephan Preibisch

Joshua Weitz @joshuasweitz.bsky.social · May 31

How bad will it be? Catastrophic.

Proposed cuts to #NSF, #NIH, and #NASA will set the US R&D landscape back 25 yrs+, cause economic and job loss now, and undermine innovations to come.

But, this is the WH's *proposed* budget.

Speak up now before it is too late.

(inflation adjusted $-s below)

NSF, NASA and NIH budgets per year, inflation adjusted from 2000-2025 along with the proposed cuts. NSF includes research component only. Massive cuts across all sectors, well below support spanning 25 years.

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Stephan Preibisch @preibischs.bsky.social · May 27

Thinkmate … retail price

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Stephan Preibisch @preibischs.bsky.social · May 27

That only took 3.5 months 😅

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Stephan Preibisch @preibischs.bsky.social · May 16

Looking forward!

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Stephan Preibisch @preibischs.bsky.social · May 1

Found some pretty cool books at the Marine Biological Laboratory @mblscience.bsky.social library alongside pictures of renowned stylish scientists, with @markkitti.bsky.social, @joshmoore.bsky.social and Graham Johnson. It was overall a very inspiring OME community meeting in Woods Hole!

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Reposted by Stephan Preibisch

GloBIAS @globias.bsky.social · May 1

#GloBIAS has a blog series - new post out today!
Two GloBIAS volunteers reflect on the first version of GloBIAS Free Help (previously Call4Help), explain the idea behind this activity and what was learned during the pilot session.
Please check out the webpage: www.globias.org/resources/gl...

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Stephan Preibisch @preibischs.bsky.social · Apr 22

The STIM paper is out! We build on established computer vision techniques to automatically create 3D volumes of spatial transcriptomics datasets with human-level accuracy, and useful, interactive visualizations.

www.sciencedirect.com/science/arti...

@hhmijanelia.bsky.social @mdc-bimsb.bsky.social

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Reposted by Stephan Preibisch

Max Delbrück Center @mdc-berlin.bsky.social · Apr 17

Join us in Potsdam for the #HIConference25 by @helmholtzimaging.bsky.social – three days of talks, workshops, community challenges, and some stunning scientific visuals!

🗓 Abstract deadline: May 1, 2025

More info and registration:
🔗 events.hifis.net/event/2061/ #HelmholtzImaging #mdcBerlin

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Reposted by Stephan Preibisch

Tancredi M Pentimalli @tmpentimalli.bsky.social · Apr 16

Our 3D study of the tumor microenvironment is finally out!

Play around with the data yourself at lung-3d-browser.mdc-berlin.de (Kudos to @danilexn.bsky.social👏 )

Many thanks to Nikolaus Rajewsky lab at @mdc-bimsb.bsky.social and everyone involved, it takes a village to raise a multimodal paper!

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Reposted by Stephan Preibisch

Tancredi M Pentimalli @tmpentimalli.bsky.social · Apr 16

www.cell.com/cell-systems...

CosMx data by @brukerspatial.bsky.social
Second harmonics by Andrew Woehler
Immunofluorescence by @sonjafritzsche.bsky.social and @josenimo.bsky.social in Fabian Coscia lab
STIM for 3D alignment by @preibischs.bsky.social @nukappa.bsky.social et al (coming very soon!)

Combining spatial transcriptomics and ECM imaging in 3D for mapping cellular interactions in the tumor microenvironment

Pentimalli et al. extend imaging-based spatial transcriptomics to 3D and combine it with ECM profiling. The multimodal analysis of cellular neighborhoods in a clinical lung adenocarcinoma sample revea...

www.cell.com

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Stephan Preibisch @preibischs.bsky.social · Apr 5

Shout out to my dear #BigStitcher #Windows users :) I finally got access to a Windows VM and fixed many Windows bugs. I hope most functionality is restored. I still advise switching to Linux/Mac, but I will be able to provide more Windows support in the future if necessary.

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Stephan Preibisch @preibischs.bsky.social · Apr 4

#conferences

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Stephan Preibisch @preibischs.bsky.social · Apr 4

#funding opportunities:
- AWS Imagine Grant (lnkd.in/exrCc7gf)
- Amazon Research Awards for Build On Trainium (lnkd.in/eP_Rg76E)

This link will take you to a page that’s not on LinkedIn

lnkd.in

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Stephan Preibisch @preibischs.bsky.social · Apr 4

I recently visited #Amazon HQ2, to present at the AWS Imagine Nonprofit conference 2025. It was exciting to see use cases & opinions from other areas than biomedicine, to make new contacts, and to see how people at AWS work.

#AWS has an interesting line up of #conferences & #funding opportunities:

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Reposted by Stephan Preibisch

Kate Miroshnikova @katemiro.bsky.social · Apr 1

Check out this new & exciting #postdoc program from Max Planck Society 🤩 - My lab is thrilled to move to MPI MB in Muenster - positions available in #chromatin #mechanobiology #cancer #stemcells #transcription join us!

Max-Planck-Gesellschaft @maxplanck.de · Apr 1

🚀 Apply now 🚀

The new Max Planck #Postdoc Program offers a guaranteed contract of at least 3 years, targeted mentoring, and career workshops.

postdocprogram.mpg.de
#ScienceCareer #PostdocProgram

Early-career reseachers at one of our Max Planck Institutes.

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Reposted by Stephan Preibisch

NPR @npr.org · Mar 23

The Trump administration's erasure of federal data has put the Internet Archive in the spotlight. The organization, with its small but mighty team, is working to help save the world's digital history.

Humming along in an old church, the Internet Archive is more relevant than ever

The Trump administration's erasure of federal data has put the Internet Archive in the spotlight. The organization, with its small but mighty team, is working to help save the world's digital history.

www.npr.org

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Stephan Preibisch @preibischs.bsky.social · Mar 21

It did indeed … it’s a matter of convenience I think. As @paveltomancak.bsky.social said, good intentions are usually there …

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Reposted by Stephan Preibisch

Max Delbrück Center @mdc-berlin.bsky.social · Mar 19

🔜 Starting at 5 PM tonight, the @dfg.de will present the 2025 #LeibnizPreis to #mdcBerlin researcher @apombo1.bsky.social and nine other recipients. Congratulations to all of them! 🥳

📺 You can join the action via livestream – click the link below! 👇

#mdcBIMSB | @www.helmholtz.de

👉 LIVESTREAM | Verleihung der Leibniz-Preise 2025 👈

Seien Sie ab 17 Uhr live dabei!

www.youtube.com

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Stephan Preibisch @preibischs.bsky.social · Mar 12

Pretty awesome setting for today’s workshop on enabling access to emerging bioimaging techniques organized by Ian Dobbie at JHU’s downtown DC campus. We had great presentations and discussions; sites.krieger.jhu.edu/iic/workshop...

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Stephan Preibisch @preibischs.bsky.social · Mar 8

Indeed they are 😉