publications

2026

1. Nat. Methods

   AlphaFold as a prior: experimental structure determination conditioned on a pretrained neural network

   Alisia Fadini^*, Minhuan Li^*, and 11 more authors

   Nature Methods, 2026

   Bib Code

   @article{fadini2026alphafold,
     title = {AlphaFold as a prior: experimental structure determination conditioned on a pretrained neural network},
     author = {Fadini, Alisia and Li, Minhuan and McCoy, Airlie J and Banjara, Suresh and Okumura, Hiroki and Napier, Eve and Fontana, Pietro and Khan, Amir R and Jovine, Luca and Terwilliger, Thomas C and Read, Randy J and Hekstra, Doeke R and AlQuraishi, Mohammed},
     journal = {Nature Methods},
     pages = {1--11},
     year = {2026},
     publisher = {Nature Publishing Group US New York},
     show_authors = {2},
   }

2. arXiv

   Robust Inference-Time Steering of Protein Diffusion Models via Embedding Optimization

   Minhuan Li^*†, Jiequn Han, Pilar Cossio, and Luhuan Wu^*†

   arXiv preprint arXiv:2602.05285, 2026

   Bib Code

   @article{li2026robust,
     title = {Robust Inference-Time Steering of Protein Diffusion Models via Embedding Optimization},
     author = {Li, Minhuan and Han, Jiequn and Cossio, Pilar and Wu, Luhuan},
     journal = {arXiv preprint arXiv:2602.05285},
     year = {2026},
     show_authors = {4},
   }

2025

1. bioRxiv

   Improving Cryo-EM Optimization Robustness with an Optimal Transport Loss Function for Noisy Images

   Geoffrey Woollard, David Herreros, Minhuan Li^†, Pilar Cossio^†, and 1 more author

   bioRxiv, 2025

   Bib Code

   @article{woollard2025improving,
     title = {Improving Cryo-EM Optimization Robustness with an Optimal Transport Loss Function for Noisy Images},
     author = {Woollard, Geoffrey and Herreros, David and Li, Minhuan and Cossio, Pilar and Duc, Khanh Dao},
     journal = {bioRxiv},
     year = {2025},
     publisher = {Cold Spring Harbor Laboratory},
     show_authors = {4},
   }

2. bioRxiv

   SFCalculator: connecting deep generative models and crystallography

   Minhuan Li, Kevin Dalton, and Doeke Hekstra^†

   BioRxiv, 2025

   Bib Code

   @article{li2025sfcalculator,
     title = {SFCalculator: connecting deep generative models and crystallography},
     author = {Li, Minhuan and Dalton, Kevin and Hekstra, Doeke},
     journal = {BioRxiv},
     year = {2025},
     show_authors = {3},
   }

2024

1. Phys. Rev. Lett.

   Phase reentrances and solid deformations in confined colloidal crystals

   Xiaoxia Li, Huang Fang, Krongtum Sankaewtong, Minhuan Li, Yanshuang Chen, Jiping Huang, and 3 more authors

   Physical Review Letters, 2024

   Bib

   @article{li2024phase,
     title = {Phase reentrances and solid deformations in confined colloidal crystals},
     author = {Li, Xiaoxia and Fang, Huang and Sankaewtong, Krongtum and Li, Minhuan and Chen, Yanshuang and Huang, Jiping and Ni, Ran and Tanaka, Hajime and Tan, Peng},
     journal = {Physical Review Letters},
     volume = {132},
     number = {1},
     pages = {018202},
     year = {2024},
     publisher = {APS},
     show_authors = {6},
   }

2021

1. Nat. Commun.

   Revealing thermally-activated nucleation pathways of diffusionless solid-to-solid transition

   Minhuan Li, Zhengyuan Yue, Yanshuang Chen, and 3 more authors

   Nature Communications, 2021

   Bib

   @article{li2021revealing,
     title = {Revealing thermally-activated nucleation pathways of diffusionless solid-to-solid transition},
     author = {Li, Minhuan and Yue, Zhengyuan and Chen, Yanshuang and Tong, Hua and Tanaka, Hajime and Tan, Peng},
     journal = {Nature Communications},
     volume = {12},
     number = {1},
     pages = {4042},
     year = {2021},
     publisher = {Nature Publishing Group UK London},
   }

2. Nat. Mater.

   Fast crystal growth at ultra-low temperatures

   Qiong Gao, Jingdong Ai, Shixiang Tang, Minhuan Li, and 7 more authors

   Nature Materials, 2021

   Bib

   @article{gao2021fast,
     title = {Fast crystal growth at ultra-low temperatures},
     author = {Gao, Qiong and Ai, Jingdong and Tang, Shixiang and Li, Minhuan and Chen, Yanshuang and Huang, Jiping and Tong, Hua and Xu, Lei and Xu, Limei and Tanaka, Hajime and others},
     journal = {Nature Materials},
     year = {2021},
     publisher = {Nature Publishing Group UK London},
     show_authors = {4},
   }

2020

1. Sci. Adv.

   Revealing roles of competing local structural orderings in crystallization of polymorphic systems

   Minhuan Li, Yanshuang Chen, Hajime Tanaka^†, and 1 more author

   Science advances, 2020

   Bib

   @article{li2020revealing,
     title = {Revealing roles of competing local structural orderings in crystallization of polymorphic systems},
     author = {Li, Minhuan and Chen, Yanshuang and Tanaka, Hajime and Tan, Peng},
     journal = {Science advances},
     year = {2020},
     publisher = {American Association for the Advancement of Science},
   }