Ellen Zhong (@ZhongingAlong) / X

Ellen Zhong

882 posts

Ellen Zhong

@ZhongingAlong

Assistant Professor @PrincetonCS. #proteins247 #cryoem #cryodrgn ❄️🐉 Prev: @MIT @DeepMind @DEShawResearch. Moonlighting @generate_biomed.

cs.princeton.edu/~zhonge/

Joined May 2011

Pinned
Ellen Zhong
@ZhongingAlong
Jun 18, 2025
🎉New preprint!🎉 Extremely excited to share CryoBoltz❄️⚡️, led by superstar @rishwanth_raghu! We develop a multiscale guidance recipe to steer structure prediction models (e.g. AlphaFold3 / Boltz-1) towards experimental cryo-EM density maps, including heterogeneous,
Rishwanth Raghu
@rishwanth_raghu
Jun 16, 2025
Excited to present CryoBoltz ❄️⚡, a multiscale guidance approach for steering AlphaFold3/Boltz-1 to sample structures that are consistent with experimental cryo-EM density maps. 🧵1/7 arxiv.org/abs/2506.04490 Joint work with @axlevy0 @GordonWetzstein & @ZhongingAlong!
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Ellen Zhong
@ZhongingAlong
Jun 6, 2022
I am thrilled to share that I will be starting as an Asst Professor of Computer Science at @Princeton this summer! Really excited for the future of machine learning in structural biology and honored to have the opportunity to lead a group in this exciting area! #proteins247 1/
Ellen Zhong
@ZhongingAlong
Jan 14, 2022
It's slowly starting to hit me... I just defended my Ph.D. from @MIT!!!
Ellen Zhong
@ZhongingAlong
Dec 14, 2023
I am recruiting PhD students @PrincetonCS interested in ML applications in bio! Our group aims to define new problems for AI in molecular & structural bio. We work at the intersection of many areas incl 3D vision & generative modeling for proteins. Plus we make useful tools!❄️🐉
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Ellen Zhong
@ZhongingAlong
Aug 21, 2023
What do dynamic protein complexes look like *inside the cell*? Excited to share our work, led by superstar @ramyarangan, on cryoDRGN-ET, a new approach in the ❄️🐉 software for reconstructing and visualizing structures from in situ cryo-ET data. 1/ biorxiv.org/content/10.110…
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Ellen Zhong
@ZhongingAlong
Oct 17, 2022
We present a new algorithm, cryoFIRE ❄️🔥, for fast ab initio heterogeneous reconstruction, appearing at @NeurIPSConf this Dec! Really proud to share our latest work, led by the amazing @axlevy0, and my first paper @PrincetonCS #EZlaboratory Paper: arxiv.org/abs/2210.07387 1/
GIF
Ellen Zhong
@ZhongingAlong
Oct 12, 2021
CryoDRGN2 ❄️🐉 is now out at @ICCV_2021! We present an algorithm for *ab initio* reconstruction of heterogeneous protein structures. We focus on techniques for fast + accurate pose inference to achieve state-of-the-art reconstructions on all of our fav, real cryo-EM datasets 1/
Ellen Zhong
@ZhongingAlong
Jul 7, 2022
I just officially started my appointment @PrincetonCS and couldn't be more excited! Current status: wandering around Princeton figuring out how to buy GPUs #newPI
Ellen Zhong
@ZhongingAlong
Feb 4, 2021
Our cryoDRGN ❄️🐉 paper is out! A deep generative model for reconstruction and analysis of protein structures from cryo-EM images, including discovery of new conformations and visualizing continuous dynamics. 1/
Nature Methods
@naturemethods
Feb 4, 2021
CryoDRGN: a deep neural network based approach for heterogeneous single particle cryo-EM reconstruction @jhdavislab @ZhongingAlong nature.com/articles/s4159…
Ellen Zhong
@ZhongingAlong
Jul 19, 2024
CryoDRGN-ET❄️🐉 is published in @naturemethods! We combine neural fields and generative modeling to reveal the structural heterogeneity of protein complexes *in situ*! So excited to see this out, and huge congrats to @ramyarangan, @FeathersRyan and team! nature.com/articles/s4159…
Ellen Zhong
@ZhongingAlong
Aug 21, 2023
What do dynamic protein complexes look like *inside the cell*? Excited to share our work, led by superstar @ramyarangan, on cryoDRGN-ET, a new approach in the ❄️🐉 software for reconstructing and visualizing structures from in situ cryo-ET data. 1/ biorxiv.org/content/10.110…
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Ellen Zhong
@ZhongingAlong
Oct 9, 2024
I've been beyond stoked today about the Chemistry Nobel prize to my colleagues and to our field of AI for structural biology. And then my group surprised me with such a thoughtful gift!! I have the best lab! My heart is melting 🥹🥂🍾
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Ellen Zhong
@ZhongingAlong
Jul 11, 2022
The Machine Learning in Structural Biology workshop @workshopmlsb is on again @NeurIPSConf, in-person/hybrid in New Orleans this Dec! Stay tuned for our call for papers 📜 More info here: mlsb.io Sign up for our mailing list: groups.google.com/g/workshopmlsb
Ellen Zhong
@ZhongingAlong
Nov 15, 2023
A monumental work by John Ingraham and team @generate_biomed on Chroma✨ for protein design. Congrats!!! 🔥🎉🔥🎉 So excited to see it out, fully open source and with experimentally validated xtal structures! Perhaps cryo-EM of the giant complexes next? generatebiomedicines.com/chroma
Andrew Beam
@AndrewLBeam
Nov 15, 2023
Replying to @AndrewLBeam
4/n: The API is meant to be very clean and easy to use. Want to get started quickly sampling a simple backbone 200 amino acids? It's as straight-forward as:
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Ellen Zhong
@ZhongingAlong
Sep 6, 2022
Amplifying this GitHub thread on cryoDRGN ❄️🐉integration with @UCSFChimeraX! Please comment if you have any feedback/desiderata or just a 👍/🎉 would be appreciated github.com/zhonge/cryodrg…