iiinova — where your digital self keeps evolving

Reposted by Bridget Carragher

Utz Ermel @uermel.bsky.social · 27/01/2026

New on the CryoET Data Portal: ~27,000 tomograms of affinity-captured lysosomes from HEK293T cells across 4 physiological states. Includes raw data, AreTomo3 reconstructions & Membrain-Seg annotations. Openly available for reuse! cryoetdataportal.czscience.com/depositions/...

Four representative slices of cryo-tomograms showing annotated organelles.

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Utz Ermel @uermel.bsky.social · 06/03/2025

The kaggle competition may be over, but we remain excited to see solutions from #TeamTomo! If you're interested in checking whether your algorithm beats the kaggle winners' please don’t hesitate to give it a go and make a submission to the data portal!

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Reposted by Bridget Carragher

Utz Ermel @uermel.bsky.social · 06/03/2025

Now that the competition is closed, we're releasing all 492 runs, including raw data, tomograms and ground truth annotations as a benchmark dataset for the community. Find the datasets here: cryoetdataportal.czscience.com/depositions/...

A 4-panel image showing tomographic slices and annotations from CZII's object detection challenge.

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Utz Ermel @uermel.bsky.social · 06/03/2025

Results from CZII's #cryoET object detection challenge on kaggle are in! Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition

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Constantin Pape @cppape.bsky.social · 21/02/2025

Our first deposition of synaptic vesicles segmentations is now in the Cryo ET Portal! We segmented vesicles in over 50 tomograms to enable analysis of membrane proteins and more. cryoetdataportal.czscience.com/depositions/...

Synaptic vesicles segmented with SynapseNet.

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Bridget Carragher @bcarra.bsky.social · 23/01/2025

Exciting update on the CryoET Data Portal! A new annotation set from Mart Last & team is now live. They’ve doubled available annotations with >1,800 tomograms of Chlamydomonas reinhardtii which now have almost fully dense labels, and all can be visualized in the browser using Neuroglancer.

cryoetdataportal.czscience.com

CryoET Data Portal

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NanoImaging Services @nanoimaging.bsky.social · 02/12/2024

As of 2021, ~530 drugs available on the market are targeted #GPCRs. About 60% of the total #GPCR complex structures solved have been resolved by #cryoEM. Cryo-EM enables visualization of GPCRs in complex with trimeric G-proteins, in a variety of conformations. 📑 Learn more: bit.ly/gpcr

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Kyle Harrington @kyleharrington.com · 08/12/2024

For the #ML and #CryoET folks out there: Are folks on here submitting to the CZII CryoET Object Identification competition: www.kaggle.com/competitions... ? The leaderboard is really interesting, and the forums are full of insights. How many of the latest picking models have been submitted?

kaggle.com

CZII - CryoET Object Identification

Find small biological structures in large 3D volumes

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Ben Engel @cellarchlab.com · 24/11/2024

Thanks for highlighting the depositions @uermel.bsky.social! The CZ #CryoET data portal and EMPIAR are incredibly important community resources for sharing tomo data, helping accelerate method development and biological discovery🧪🧶🧬

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Bridget Carragher @bcarra.bsky.social · 24/11/2024

CZII’s cryoET particle picking machine learning challenge is up and running. More than 3400 signups on Kaggle, great discussions going on, and leaderboard scores better than we were able to do! Start off at: cryoetdataportal.czscience.com/competition

cryoetdataportal.czscience.com

Started

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Bridget Carragher @bcarra.bsky.social · 15/12/2023

bit.ly/3T9sZ6D Built for biologists and developers, you can find and visualize datasets in the #CryoET Data Portal or download them for your work. We’re working with EMPIAR to host data and support annotation. Please share feedback and contribute datasets or annotations.

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Bridget Carragher @bcarra.bsky.social · 15/12/2023

Our team at #CZImagingInstitute is excited to share the #CryoET Data Portal beta release. With over 13,000 tomograms, it’s the start of what we hope will be a large, open-access portal of high-quality, standardized & annotated cryo-ET data. bit.ly/3T9sZ6D

bit.ly

CryoET Data Portal

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Chris Caffalette @caffalette.bsky.social · 01/10/2023

Welcome @bcarra.bsky.social ! It seems that feeds can be a convenient way to collect posts with certain hashtags / keywords, so I took a swing at setting two up, one for #cryoEM posts: bsky.app/profile/did:... and one for #cryoET #teamtomo posts: bsky.app/profile/did:... Let’s see how it goes!

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Basil Greber @bjgreber.bsky.social · 27/10/2023

This was missed due to major live events happening around the same time, but we have released some of our high-resolution (2 Å) and rapid screening #cryoEM maps & models of the human CAK bound to small molecules. Paper still under review - more to follow. www.ebi.ac.uk/emdb/search/...

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Ben Engel @cellarchlab.com · 27/10/2023

Meet the PyShell!🥧🐚 Diatom pyrenoids fix up to 20% of the Earth's #CO2🌏. We discovered that their Rubisco is encased in a tight protein lattice that is essential for efficient carbon fixation and cell growth🌱 Super excited to share our new preprint📜: www.biorxiv.org/content/10.1... 🌾🧪 🧶🧬 ❄️🔬

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Florian Jug @florianjug.bsky.social · 27/10/2023

😱📣 BlueSky-ers: WE NEED YOUR HELP!!! 🙏 All of you who ever liked a lecture of mine... All of you who liked one of the courses I teach in... All of you I work(ed) with in one way or another... All of you who see my desperation! 😜 PLEASE re-post! 🙏 careers.humantechnopole.it/o/postdoc-in...

careers.humantechnopole.it

Postdocs in Artificial Intelligence

Human Technopole (HT) is an interdisciplinary life science research institute, created and supported by the Italian Government, with the aim of developing innovative strategies to improve human health

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Bridget Carragher @bcarra.bsky.social · 29/09/2023

Thanks Karolin (@nucleosomepolice.bsky.social) for inviting me here. Seems like a lot of cryoEM/ET friends have joined. Is there the equivalent of #cryoem and #teamtomo?

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