COSEM @COSEMdata

Using machine learning and computer vision techniques to automatically identify and quantify all intracellular substructures & organelles in isotropic EM data janelia.org/project-team/c… Virginia, USA Joined November 2020

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Aubrey Weigel @avweigel

3 years ago

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-ann… #teamscience #projectteams #openscience

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John Bogovic @BogovicJohn

3 years ago

Last Friday @CmHulbert presented #Paintera at #I2K2022 . Here, showing some beautiful @COSEMdata on openorganelle.org youtube.com/watch?v=rNJotg… github.com/saalfeldlab/pa…

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OpenOrganelle @OpenOrganelle

4 years ago

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!

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Aubrey Weigel @avweigel

4 years ago

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)

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COSEM @COSEMdata

4 years ago

Check out the new feature on OpenOrganelle.janelia.org!

OpenOrganelle @OpenOrganelle

4 years ago

Check out the new feature on OpenOrganelle.janelia.org!

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Marius Pachitariu @marius10p

4 years ago

Still hiring for these positions at Janelia!

Marius Pachitariu @marius10p

5 years ago

Still hiring for these positions at Janelia!

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Sadaf Shadan @sshadan

4 years ago

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

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Aubrey Weigel @avweigel

4 years ago

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)

Aubrey Weigel @avweigel

5 years ago

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OpenOrganelle @OpenOrganelle

4 years ago

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 !

Aubrey Weigel @avweigel

4 years ago

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OpenOrganelle @OpenOrganelle

4 years ago

Sounds like a great course!

Assaf Zaritsky @AssafZaritsky

4 years ago

Sounds like a great course!

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COSEM @COSEMdata

4 years ago

😍

Michael Morehead @michael_syglass

4 years ago

😍

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Lippincott-Schwartz Lab @JLS_Lab

4 years ago

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/1cv4PL7PXez~G

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Krishna Mudumbi @KrishnaMudumbi

5 years ago

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

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Ulrike Boehm 🔬👩🏻‍💻 @Ulrike_Boehm

5 years ago

Meet Aubrey Weigel! @avweigel leads the @COSEMdata Team at @HHMIJanelia which is developing ML approaches to automatically identify & quantify all intracellular structures in FIB-SEM datasets of mammalian cells 🔬👩🏻‍💻 Happy #WomenScienceDay! #womenatjanelia #womeninscience 3/4

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Ulrike Boehm 🔬👩🏻‍💻 @Ulrike_Boehm

5 years ago

Meet Lorena Benedetti!@LorenaBenedet15 is a postdoc in the Ryan & @JLS_Lab at @HHMIJanelia. She studies the role of the endoplasmic reticulum at the nerve terminal 🧫🔬👩🏻‍💻 Happy #WomenScienceDay! #womenatjanelia #womeninscience 2/4

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Ulrike Boehm 🔬👩🏻‍💻 @Ulrike_Boehm

5 years ago

Meet Helen Farrants! @HelenFarrants is a postdoc in the @ERSchreiter lab at @HHMIJanelia. She is developing bright #biosensors for imaging neuronal activity in living organisms 🧪🌈🧑🏼‍🔬 Happy #WomenScienceDay! #womenatjanelia #womeninscience 1/4

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Luciano Lucas @lucianoaglucas

5 years ago

Check out @COSEMdata and openorganelle.janelia.org

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Luciano Lucas @lucianoaglucas

5 years ago

Amazing presentation at #AIMicroscopy Symposium: "Automatic whole cell organelle segmentation in volumetric electron microscopy" @avweigel @HHMIJanelia @BogovicJohn @herrsaalfeld @herrsaalfeld et al. openorganelle.janelia.org #Unet #deeplearning #microscopy