Open access to annotated cryoET tomograms

Datasets

309

Species

45

Tomograms

16,700

or explore via API

Welcome to the CryoET Data Portal, a project built by the Chan Zuckerberg Imaging Institute and the Chan Zuckerberg Initiative.

Currently, annotating tomograms from cryo-electron tomography (cryoET) experiments is a tedious, time-consuming, and often manual process. Our goal is to accelerate this process by catalyzing the development of sophisticated machine-learning methods for automatic annotation, helping researchers find scientific insights faster.

The portal provides biologists and developers open access to high-quality, standardized, annotated data they can readily use to retrain or develop new annotation models and algorithms. We would like to highlight the groups of Julia Mahamid, Jürgen Plitzko, David Agard, John Briggs, Abhay Kotecha, Ben Engel, Danielle Grotjahn, and Grant Jensen for contributing the initial datasets. All contributors to date are listed below.

All tomograms include rich standardized metadata such as data tree structure and naming conventions. Most groups have already provided annotations for their data, and there is a structure to add new annotations to existing tomograms.

We are actively growing the number of annotated datasets on the portal and encourage researchers to share their data. We are working with EMPIAR to host the data and support annotation.

Ultimately, our vision is to contribute to developing a large, open-access database of annotated and validated 3D structural information for cells that researchers can use to gain new insights into cellular and structural biology.

Help us achieve this vision

View and Download Datasets

Find and visualize cryoET datasets in the portal and download to use for your work.

Contribute your Data

We encourage you to share datasets and/or annotations to existing data. Click below to fill out the inquiry form.

Participate in our ML competition

Develop a ML model for annotating subcellular structures and proteins in CryoET data.

Thank You to our Data Contributors…

  • David A. Agard
  • Benjamin A. Barad
  • Ralf Bartenschlager
  • Wolfgang Baumeister
  • Florian Beck
  • Martin Beck
  • Morgan Beeby
  • Tristan Bepler
  • Gira Bhabha
  • Daija Bobe
  • Ariane Briegel
  • John Briggs
  • Bridget Carragher
  • Stephen Carter
  • Berati Cerikan
  • Saikat Chakraborty
  • Yi-Wei Chang
  • Songye Chen
  • Zhen Chen
  • Dorothy W. C. Cheng
  • Dienemann Christian
  • Oliver Clarke
  • Will Conway
  • Mirko Cortese
  • Nicolas Coudray
  • Helge Markus Dietrich
  • Tegunov Dimitry
  • Alba Diz-Munoz
  • S van Dorst
  • Przemek Dutka
  • Damian C. Ekiert
  • Benjamin D. Engel
  • Philipp Erdmann
  • Utz Heinrich Ermel
  • Gunar Fabig
  • Daniel Fuentes
  • Alvarez Viar G
  • Yujia Gao
  • Stefan Geimer
  • Debnath Ghosal
  • Sara Goetz
  • Danielle A. Grotjahn
  • Paul Guichard
  • Caiying Guo
  • Kelsey M. Haas
  • Virginie Hamel
  • Kyle I. S. Harrington
  • Jessica Heebner
  • Hugo G. van den Hoek
  • Grant Jensen
  • Jake Johnston
  • Mareike Jordan
  • Robyn M. Kaake
  • Christoph J.O. Kaiser
  • Mohammed Kaplan
  • Zunlong Ke
  • Kotaro Kelley
  • Ron Kelley
  • Sagar Khavnekar
  • Robert Kiewisz
  • Nikolai Klena
  • Sven Klumpe
  • Adrian Fujiet Koh
  • Mykhailo Kopylov
  • Victor Kostyuchenko
  • Abhay Kotecha
  • Hans-Georg Kräusslich
  • Anna Kreshuk
  • Nevan J. Krogan
  • Anuj Kumar
  • Adam Lerer
  • Xue Liang
  • Shee-Mei Lok
  • John Lu
  • Julia Mahamid
  • Alexander Mattausch
  • C McCafferty
  • Lesley McKeane
  • Michaela Medina
  • Luiza Mendonca
  • LaurenAnn Metskas
  • Alicia K Michael
  • Dustin R. Morado
  • Volker Müller
  • Thomas Müller-Reichert
  • Takanori Nakane
  • Christopher Neufeldt
  • William Nicolas
  • Alex J. Noble
  • Martin Obr
  • Joaquin Oton
  • Constantin Pape
  • Cramer Patrick
  • Julia Peukes
  • Gaia Pigino
  • Martin Pilhofer
  • Juergen Plitzko
  • M. Jürgen Plitzko
  • Matthias Poege
  • Benjamin J. Polacco
  • Clinton S. Potter
  • Kun Qu
  • Rishwanth Raghu
  • Harshita Ramchandani
  • Rasika Ramdasi
  • Ramya Rangan
  • Stefanie Redemann
  • Ricardo D. Righetto
  • Miroslava Schaffer
  • Sjors H. W. Scheres
  • Oda Helene Schiøtz
  • Jonathan Schneider
  • Jan Michael Schuller
  • Sandra Katharina Schuller
  • Jonathan Schwartz
  • Fabian M. Schwarz
  • Jian Shi
  • Momoko Shiozaki
  • P Van Der Stappen
  • Frosina Stojanovska
  • Poorna Subramanian
  • Matt Swulius
  • Grigory Tagiltsev
  • Christopher Thompson
  • Elitza Tocheva
  • Fergus Tollervey
  • Mauricio Toro-Nahuelpan
  • Raphael Trischler
  • Irene de Teresa Trueba
  • Mahrukh Usmani
  • Ron Vale
  • Ronald D. Vale
  • Jonathan Wagner
  • Florent Waltz
  • William Wan
  • Wojciech Wietrzynski
  • R. Luke Wiseman
  • Cora Woodward
  • Xiaoli Xiong
  • Min Xu
  • Liang Xue
  • Qing Yao
  • Zhiheng Yu
  • Judith B. Zaugg
  • Xueying Zhan
  • Xianjun Zhang
  • Shumei Zhao
  • Ellen D. Zhong
  • Vojtech Zila
  • Christian Eugen Zimmerli
  • Jasenko Zivanov

Top Image: The inner workings of an algal cell as depicted with cryo-electron tomography, which aggregates multiple snapshots of a single piece of material. Visible are the Golgi apparatus (green and magenta), and vesicles (multi-colored circles). | Photo credit: Y. S. Bykkov et al./eLIFE (CC BY 4.0)