publications

2026

1. GisAPR: A package that refines atomic models against cryo-EM images without 3D volumes

   Dongjie Zhu, Kexin Zhang, Lingli Kong, and 1 more author

   In preparation, 2026

   Bib

   @article{zhu2026gisapr,
     title = {GisAPR: A package that refines atomic models against cryo-EM images without 3D volumes},
     author = {Zhu, Dongjie and Zhang, Kexin and Kong, Lingli and Grigorieff, Nikolaus},
     journal = {In preparation},
     year = {2026},
   }

2. eLife

   Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching

   Kexin Zhang, Timothy Grant, and Nikolaus Grigorieff

   eLife, 2026

   Bib HTML

   @article{zhang2026sub50kda,
     title = {Improved cryo-EM reconstruction of sub-50 kDa complexes using 2D template matching},
     author = {Zhang, Kexin and Grant, Timothy and Grigorieff, Nikolaus},
     journal = {eLife},
     year = {2026},
   }

2025

1. DiffPose: Differentiable projection matching for fast pose inference in cryo-EM

   Kexin Zhang, Dongjie Zhu, and Nikolaus Grigorieff

   Preprint, 2025

   Bib HTML

   @article{zhang2025diffpose,
     title = {DiffPose: Differentiable projection matching for fast pose inference in cryo-EM},
     author = {Zhang, Kexin and Zhu, Dongjie and Grigorieff, Nikolaus},
     journal = {Preprint},
     year = {2025},
   }

2. IUCrJ

   A new statistical metric for robust target detection in cryo-EM using 2D template matching

   Kexin Zhang, Pilar Cossio, Aaditya V. Rangan, and 2 more authors

   IUCrJ, 2025

   Bib HTML

   @article{zhang2025iucrj,
     title = {A new statistical metric for robust target detection in cryo-EM using 2D template matching},
     author = {Zhang, Kexin and Cossio, Pilar and Rangan, Aaditya V. and Lucas, Bronwyn A. and Grigorieff, Nikolaus},
     journal = {IUCrJ},
     year = {2025},
   }

2024

1. arXiv

   Estimating the tails of the spectrum of the Hessian of the log-likelihood for ab-initio single-particle reconstruction in electron cryomicroscopy

   Aaditya V. Rangan, Wai-Shing Tang, Pilar Cossio, and 2 more authors

   arXiv, 2024

   Bib HTML

   @article{rangan2024hessian,
     title = {Estimating the tails of the spectrum of the Hessian of the log-likelihood for ab-initio single-particle reconstruction in electron cryomicroscopy},
     author = {Rangan, Aaditya V. and Tang, Wai-Shing and Cossio, Pilar and Zhang, Kexin and Grigorieff, Nikolaus},
     journal = {arXiv},
     year = {2024},
   }

2022

1. eLife

   In situ single particle classification reveals distinct 60S maturation intermediates in cells

   Bronwyn A. Lucas, Kexin Zhang, Sarah Loerch, and 1 more author

   eLife, 2022

   Bib HTML

   @article{lucas2022insitu,
     title = {In situ single particle classification reveals distinct 60S maturation intermediates in cells},
     author = {Lucas, Bronwyn A. and Zhang, Kexin and Loerch, Sarah and Grigorieff, Nikolaus},
     journal = {eLife},
     year = {2022},
   }

2021

1. JCIM

   CS-Annotate: A tool for using NMR chemical shifts to annotate RNA structure

   Kexin Zhang, Kyrillos Abdallah, Pujan Ajmera, and 4 more authors

   Journal of Chemical Information and Modeling, 2021

   Bib HTML

   @article{zhang2021csannotate,
     title = {CS-Annotate: A tool for using NMR chemical shifts to annotate RNA structure},
     author = {Zhang, Kexin and Abdallah, Kyrillos and Ajmera, Pujan and Finos, Kyle and Looka, Andrew and Mekhael, Joseph and Frank, Aaron T.},
     journal = {Journal of Chemical Information and Modeling},
     year = {2021},
   }

2. JPC B

   Probabilistic modeling of RNA ensembles using NMR chemical shifts

   Kexin Zhang and Aaron T. Frank

   The Journal of Physical Chemistry B, 2021

   Bib HTML

   @article{zhang2021jpcb,
     title = {Probabilistic modeling of RNA ensembles using NMR chemical shifts},
     author = {Zhang, Kexin and Frank, Aaron T.},
     journal = {The Journal of Physical Chemistry B},
     year = {2021},
   }

2020

1. JCIM

   Pyshifts: A PyMOL plugin for chemical shift-based analysis of biomolecular ensembles

   Jingru Xie, Kexin Zhang, and Aaron T. Frank

   Journal of Chemical Information and Modeling, 2020

   Bib HTML

   @article{xie2020pyshifts,
     title = {Pyshifts: A PyMOL plugin for chemical shift-based analysis of biomolecular ensembles},
     author = {Xie, Jingru and Zhang, Kexin and Frank, Aaron T.},
     journal = {Journal of Chemical Information and Modeling},
     year = {2020},
   }

2. Langmuir

   Strong hydration at the poly(ethylene glycol) brush/albumin solution interface

   Kexin Zhang, Hao Huang, Hsiang-Chieh Hung, and 5 more authors

   Langmuir, 2020

   Bib HTML

   @article{zhang2020langmuir,
     title = {Strong hydration at the poly(ethylene glycol) brush/albumin solution interface},
     author = {Zhang, Kexin and Huang, Hao and Hung, Hsiang-Chieh and Leng, Chuan and Wei, Shuai and Crisci, Ralph and Jiang, Shaoyi and Chen, Zhan},
     journal = {Langmuir},
     year = {2020},
   }

3. Chem. Sci.

   Surface hydration for antifouling and bio-adhesion

   Chelsey A. Del Grosso, Chuan Leng, Kexin Zhang, and 4 more authors

   Chemical Science, 2020

   Bib HTML

   @article{delgrosso2020sci,
     title = {Surface hydration for antifouling and bio-adhesion},
     author = {Del Grosso, Chelsey A. and Leng, Chuan and Zhang, Kexin and Hung, Hsiang-Chieh and Jiang, Shaoyi and Chen, Zhan and Wilker, Jonathan J.},
     journal = {Chemical Science},
     year = {2020},
   }

2019

1. JPC B

   Conditional prediction of ribonucleic acid secondary structure using chemical shifts

   Kexin Zhang and Aaron T. Frank

   The Journal of Physical Chemistry B, 2019

   Bib HTML

   @article{zhang2019csfold,
     title = {Conditional prediction of ribonucleic acid secondary structure using chemical shifts},
     author = {Zhang, Kexin and Frank, Aaron T.},
     journal = {The Journal of Physical Chemistry B},
     year = {2019},
   }