herrsaalfeld.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Nice theory-first call! At @hhmijanelia.bsky.social, theorist, experimentalist, engineers, and computational scientists tightly collaborate. This allows us to integrate all forms of discovery, top-down, bottom-up, middle-out (you pick what's what for you).

submitted 1 day ago • 0 comments

“Join the Pigino Lab! We’re hiring a PhD student to explore primary cilia biology using advanced imaging, spatial ‘omics, and AI. Apply now at www.cilia-ai.eu and be part of the Cilia-AI Doctoral Network!”

submitted 7 days ago • 0 comments

Nice preprint on SMLM localizations with NN, LUNAR. The network learns both locations and PSFs www.biorxiv.org/content/10.1...

submitted 3 days ago • 2 comments

When OMB head Russ Vought talks about deliberate efforts to put federal employees "in trauma" and make them quit their jobs, he's talking about people like Michelle, recently fired by Musk/Trump. www.sfgate.com/california/a...

submitted 3 days ago • 77 comments

With the systematic dismantling of science and research funding we see in the US, we in Europe and Germany have a responsibility and a chance to support basic science! Go vote today and make your voice heard! @maxplanck.de @erc.europa.eu @mpinb.mpg.de

submitted 3 days ago • 1 comment

Our vote by mail ballot for the German general elections arrived today, less than 24h before delivery deadline (we had applied in December). Anybody taking a flight from IAD to Berlin tonight?

submitted 4 days ago • 1 comment

Isotropic, aberration-corrected light sheet microscopy for rapid high-resolution imaging of cleared tissue www.biorxiv.org/content/10.1...

submitted 5 days ago • 0 comments

My German election ballot only arrived today, a long shot but is anyone traveling from Boston to Berlin today who could take it? Any leads @germanyinboston.bsky.social ?

submitted 5 days ago • 15 comments

Honored to begin as Director @neurobio-upr.bsky.social , UPR Med Sciences. After disasters, pandemic & cuts, we’re rebuilding—expanding into computational neuroscience & ramping up conferences/courses. We’ll seek partners & donors; reach out to join us! Stay tuned for more.

submitted 6 days ago • 6 comments

Students and postdocs: interested in theoretical biophysics? Apply for @hhmijanelia.bsky.social’s second Junior Scientist Workshop on Theoretical Biophysics! Applications due in June for a work week of fantastic scientific interactions this October: www.janelia.org/you-janelia/...

submitted 6 days ago • 0 comments

Such a fun project and great teamwork with @gaiapigino.bsky.social. Thanks to all involved.

submitted 29 days ago • 0 comments

Reminder: The functions of government should be boring. Government is not a reality show and there should be very little day to day drama.

submitted 9 days ago • 2 comments

‼️🔬 We start!!! 🎉🤖 Super exciting!!! After years of teaching courses for #DeepLearning for Microscopy and Life Science application, we start today our first “advanced course” @embl.org! #EMBLDeepLearning

submitted 9 days ago • 2 comments

If you wanted to cut waste, fraud, and abuse, you would empower the inspectors general. If you wanted more waste, fraud, and abuse, you would fire them.

submitted 9 days ago • 2290 comments

We read "Large Concept Models" in our reading group. It models language at the sentence resolution - "concepts". We had lots of thoughts about it! You can read them in our new Janelia CVML blog post: janelia-cvml.github.io/blog/posts/L... #ML #AI #Janelia @adjavon.bsky.social @bogovicj.bsky.social

submitted 12 days ago • 1 comment

Welcome to the Bluesky account for Stand Up for Science 2025! Keep an eye on this space for updates, event information, and ways to get involved. We can't wait to see everyone #standupforscience2025 on March 7th, both in DC and locations nationwide! #scienceforall #sciencenotsilence

submitted 14 days ago • 111 comments

Do you love software engineering for exciting biological applications, open science,open source, R, Bioconductor, modern web, cloud& ML technologies? We're looking for a software engineer to work on R/Bioconductor tools for biological data science and AI embl.wd103.myworkdayjobs.com/en-US/EMBL/j...

submitted 12 days ago • 3 comments

X-ray nanotomography can be your new friend for neuronal imaging. In our new #preprint (tinyurl.com/nanoXneuro) we present advances that push the spatial resolution limit for X-ray holographic nanotomography (XNH). We can now resolve synapses. 🧵

submitted 15 days ago • 1 comment

After a long journey, Segment Anything for Microscopy is now published in Nature Methods! We significantly improve SAM for interactive and automatic segmentation in light and electron microscopy and build a user-friendly tool. www.nature.com/articles/s41...

submitted 14 days ago • 12 comments

The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out. It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution. We used it to study cancer-immune cell interactions. www.nature.com/articles/s41...

submitted 14 days ago • 5 comments

Can LLMs be used to discover interpretable models of human and animal behavior?🤔 Turns out: yes! Thrilled to share our latest preprint where we used FunSearch to automatically discover symbolic cognitive models of behavior. 1/12

submitted 16 days ago • 3 comments

📝 FeatureForest: the power of foundation models, the usability of random forests. Nomen est omen! We use features of the biggest models and train a handy random forest based pixel classifier with them. 👍 Hit bioRxiv recently… check it out! www.biorxiv.org/content/10.1...

submitted 16 days ago • 3 comments

ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🧬🎨🍬 The glycocalyx, our cells' sugar coat, holds secrets in immunology, cancer, viral infections, and more. Visualizing its molecular architecture was impossible… until now. #glycotime #microscopy www.biorxiv.org/content/10.1...

submitted 16 days ago • 15 comments

Fun fact: I wrote a 20 page undergraduate paper on Lysenkoism in a class on Soviet Science & Chernobyl. Everybody here should probably look that up if you don't recognize the word.

submitted 18 days ago • 0 comments

There's a Korean soap opera on Netflix (When the Stars Gossip) which has Drosophila courtship in space as a major plot point (Ep 2). They have Michael Reiser & lab's flight arenas (you can see Janelia & MIchael's initials on the panels). Great way to learn about Drosophila courtship!

submitted 22 days ago • 1 comment

We're hiring! Our IT Team is looking for a Linux Systems Engineer to support scientific computing and big data management. Apply here: www.fmi.ch/education-ca...

submitted 20 days ago • 0 comments

🚨 Job Alert 🚨🔬🧪👩‍💻🖥️ Are you interested in #BioimageAnalysis #ComputerVision #AI #ML methods for the #LifeSciences? Do you want to work on #DigitalPathology of tissues, cells, organelles? Check out this #PostDoc opportunity in a collaboration with Jens Rittscher from @oxengsci.bsky.social @ox.ac.uk

submitted 19 days ago • 1 comment

"Imagine a DAPI-like stain, but for the extracellular matrix." That's basically how this work was pitched to me by Kayvon and Antonio a year or so ago. Now the final product really delivers. Read about their versatile label for ECM in living tissues here: www.nature.com/articles/s41...

submitted 20 days ago • 9 comments

Finally, a new release for Aligning Big Brains and Atlases! A preprint 🎉 + plenty of small improvements, have a look at the forum thread for details! forum.image.sc/t/abba-align...

submitted 22 days ago • 1 comment

📢 Submissions are now open for the CellMap Segmentation Challenge. Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types. 🔗 hhmi.news/410evJQ

submitted 21 days ago • 1 comment

Trump’s blackout is Orwellian, dangerous, and harmful to all Americans who count on this information for critical services. This censorship is unAmerican.

submitted 26 days ago • 12 comments

🎉 Congratulations to our HHMI and @hhmijanelia.bsky.social scientists named to the @cellpress.bsky.social 50 Scientists That Inspire list, which honors scientists whose research and careers drive innovation, cross boundaries, and inspire the leaders of the future. 👏 More: https://buff.ly/40U13Hi

submitted 27 days ago • 0 comments

This summer course is going to be awesome! Please repost and tell your students/postdocs/everyone to apply. We have lots of excellent faculty as well as lectures on #connectome modeling by yours truly and Jonathan Pillow.

submitted 23 days ago • 0 comments

This from the NSF. Which has championed 'Broader Impacts' for decades. 'Women' is a flagged term. I feel terrible for the POs at the NSF. NSF caving like this wasn't on my bingo card.

submitted 23 days ago • 1 comment

I would look pretty differently about any scientist that would volunteer their time to review grants that had to through any of this Orwellian bullshit.

submitted 23 days ago • 2 comments

Look at these beautiful new object features, now available in ilastik! Big thanks to Oane @grosoane.bsky.social for bringing them to all our users!

submitted 24 days ago • 0 comments

We just released and uploaded a new version of Mastodon, the large-scale tracking and track-editing framework for large, multi-view images. Mastodon is available via Fiji, via a dedicated update site. mastodon.readthedocs.io/en/latest/do... Below is a thread that survey some of the novelties ⏬️

submitted 27 days ago • 3 comments

Holy shit, nerds, have you seen this? If you're studying #brain wide neuronal activation using #cFOS and a #lightsheet #microscope you need to read this doc STAT🧪🔬. www.nature.com/articles/s41...

submitted 28 days ago • 2 comments

Attention evolution afficionados!! A new European Conference of Comparative Neurobiology (ECCN) is coming up in beautiful Alicante (Spain). Join us with a spectacular list of speakers, highlighting our keynotes Gilles Laurent, Alain Chedotal, Laura Fenlon and Henrik Kaessmann.

submitted 28 days ago • 1 comment

i will be enthusiastically hosting connectomics luminary @darbly.bsky.social for an @uw-nbio.bsky.social seminar tomorrow. come join us if you can!

submitted 28 days ago • 1 comment

Folks are always surprised to learn that NVIDIA has been working on a foundation model for cell segmentation called Vista 2D that can be trained on a variety of cell imaging outputs, including brightfield, phase-contrast, fluorescence, confocal, or electron microscopy. Blog in thread 🧵

submitted 33 days ago • 1 comment

Employees of the US federal government (full disclosure- including me) today were instructed today to rat out any colleague suspected of covertly engaging in suspected DEIA activities. https://chcoc.gov/sites/default/files/OPM%20Memo%20Initial%20Guidance%20Regarding%20DEIA%20Executive%20Orders.pdf

submitted 35 days ago • 5 comments

My lab has a tradition that each week one person contributes edits to a Wikipedia page relevant to their scientific work, and then presents it briefly at lab meeting (and we clap). A few of my favorites: en.wikipedia.org/wiki/Proprio... en.wikipedia.org/wiki/Chionea en.wikipedia.org/wiki/Femoral...

submitted 34 days ago • 10 comments

Our paper from Junchol Park and collaborators that has been brewing for a while. Trying to capture our thinking about what action specification in striatum means and what would constitute evidence for such a model. Longer thread soon, but it’s online now. www.cell.com/neuron/fullt...

submitted 34 days ago • 1 comment

📣Hey, deep learning experts! Show off your 3D image-to-image fusion skills by entering @france-bioimaging.bsky.social "Fuse My Cells" challenge. 👉For more info & to participate: fusemycells.grand-challenge.org/fusemycells/ 🥁The training database will be available on 🗓️ January 31.

submitted 34 days ago • 0 comments