EXPLORE CELLS & TISSUE AT NM RESOLUTION: High res 3D-EM datasets, automated segmentations, & analyses of intracellular sub-structures and organelles
Virginia, USA
Joined October 2020
- Tweets27
- Following74
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OpenOrganelle retweeted
Check out the ✨NEW✨ content on OpenOrganelle!
Update includes:
📰A News page
🦠An updated Organelles page
🔍A new backend for dataset metadata which is now stored in a queryable PostgreSQL database
openorganelle.janelia.org
ALT Screen shot of new home page featuring News reel and latest datasets
ALT Screenshot of News and Announcements page including thumbnails of each blog post
ALT Screenshot of newly updated Organelles page. A thumbnail gallery of EM images for organelles such as centrosomes, mitochondria, nucleus, etc.
OpenOrganelle retweeted
And another gorgeous rendering 🤩 by @philiphubbard : youtu.be/hfHO2DjpJSE
OpenOrganelle retweeted
Super cool rendering 😍 by @philiphubbard up on Janelia's YouTube channel: youtu.be/3hVHbIRS48Q
OpenOrganelle retweeted
Ever wanted to learn how to segment organelles in vEM? Or how we (@COSEMdata/@CellMapPT) generate training data for ML efforts? Look no further! You can find it all here in our recent protocol protocols.io/view/amira-anno… #teamscience #projectteams #openscience
ALT organelle segmentation
OpenOrganelle retweeted
Last Friday @CmHulbert presented #Paintera at #I2K2022 . Here, showing some beautiful @COSEMdata on openorganelle.org/
youtube.com/watch?v=rNJotgwU…
github.com/saalfeldlab/paint…
Check out all this amazing data on OpenOrganelle.Janelia.org!
Honored and humbled that our article was selected for the cover of @ScienceMagazine. The image of the T cell (red) attacking a cancer cell (white) is a digital reconstruction of 3D electron micrographs collected with collaborators @HHMIJanelia. Segmentation/rendering @ariadne_ai
OpenOrganelle retweeted
At long last, the AIC is again accepting proposals! Advance your science with our revolutionary technology and expertise. Deadline is April 15, 2022. Visit aicjanelia.org/apply to get started. As always, please contact us for technical consultations before submission.
Some new updates on the site, including rearranging and cleaning up the dataset pages 🪄.
Also, did you know that you can open (or view) any of the datasets directly in @FijiSc using either File/Import/N5 or Plugins/BigDataViewer/N5 viewer? Check it out!
OpenOrganelle retweeted
Research Highlight by @DrArunimaSingh: Researchers from @HHMIJanelia present methods for capturing whole cell EM images. @OpenOrganelle makes these FIB-SEM volumes, reconstructions and models freely available to the public.
nature.com/articles/s41592-0…
OpenOrganelle retweeted
1:50 pm @avweigel will present EM organelle segmentation @OpenOrganelle (openorganelle.janelia.org/)
2:05 pm Susanne Rafelski will present the latest and the greatest from the @AllenInstitute (allencell.org/)
2/5
OpenOrganelle retweeted
Come work with us at @HHMIJanelia with the new 🖌 Annotation & Analytics 📊 team tinyurl.com/5xxy2v95. This is a ✨ NEW ✨ multi-disciplinary team that will work with a variety of datasets (1/6)
#NewFeature alert! Now you can filter and sort available datasets on OpenOrganelle.janelia.org. Happy browsing! Thanks @neomorphic and @davisvbennett for the continuous improvements to the site 🌠
OpenOrganelle retweeted
2 Papers @Nature on the use of enhanced FIB-SEM to image cells and tissues at up to 4nm per voxel. The authors' AI-based analysis pipeline, which they used for reconstruction of 35 organelle classes, is available via OpenOrganelle
go.nature.com/3lhin4w
go.nature.com/3oEsthG
We’ve also gotten a facelift! 💁♀️ Browse all the related data for these papers and more - AND - volume renderings are now available for most segmentations. Check it out on openorganelle.janelia.org !
It’s official! Our manuscript is out today in @Nature. 🥳 Additions since our preprint include a comparison of generalists trained on all training data vs specialists trained on subsets (spoiler alert: generalists win!) and #moreGolgi!
rdcu.be/cy1UJ (1/3)
Sounds like a great course!
Final session of @bengurionu data science in cell imaging course!
Course summary and @OpenCellCZB, @OpenOrganelle, and @AllenInstitute public resources
Slides are up assafzar.wixsite.com/dsci202…, ping me for recordings!
Still curious to see how students' projects will turn out :-)
You can explore the all FIB-SEM data published here on OpenOrganelle.org!
Excited to share our work on ER-to-Golgi trafficking and the dynamic nano-anatomy of ER exit sites in mammalian cells! @chiluncellbio @avweigel (1/4) authors.elsevier.com/c/1cv4P…
OpenOrganelle retweeted
Ein phänomenales Mikroskopie-Projekt (von @HHMIJanelia) veröffentlicht ganze Elektronenmikroskopische Datensätze von unterschiedlichen Zelltypen um die einzelnen Zellbestandteile zu visualisieren: openorganelle.org @OpenOrganelle
OpenOrganelle retweeted
Looks like I'll be spending a lot of time playing around with openorganelle.janelia.org/ soon!
Great talk from @avweigel with such beautiful pictures (as always) at #AIM2021
OpenOrganelle retweeted
This is dope!
what if you could explore biology in 3D, utilizing real data from microscopes? what if experts could easily create compelling VR experiences with their own data?
new version of @syGlassVR dropping in February 🔬