Publications

2026

1. Chem. Commun.

   Peptide–protein docking: from physics-based models to generative intelligence

   Kai Ling, Shu Li, Zicong Zhang, and 2 more authors

   Chemical Communications, 2026

   Abs Bib HTML

   A comprehensive review of peptide-protein docking methods, from traditional physics-based approaches to modern generative AI techniques.

   @article{ling2026peptide,
     title = {Peptide--protein docking: from physics-based models to generative intelligence},
     author = {Ling, Kai and Li, Shu and Zhang, Zicong and Shin, Woong-Hee and Kihara, Daisuke},
     journal = {Chemical Communications},
     year = {2026},
   }

2. In Prep.

   Distance-AF Multimer: A Multi-Step Approach for Protein Complex Structure Modeling with User-Defined Distance Constraints

   Kai Ling and Daisuke Kihara

   In preparation, 2026

   Abs Bib

   A distributed multi-GPU optimization pipeline for protein-complex structure prediction that adapts the Distance-AF method to complexes as a per-target, test-time optimization fitting user-supplied distance constraints. Benchmarked across three datasets with up to  60Å global-RMSD improvement over AlphaFold-Multimer on the hardest targets.

   @article{ling2026distanceaf,
     title = {Distance-AF Multimer: A Multi-Step Approach for Protein Complex Structure Modeling with User-Defined Distance Constraints},
     author = {Ling, Kai and Kihara, Daisuke},
     journal = {In preparation},
     year = {2026},
   }

3. BPS

   Unlocking cryo-EM structures: The EMSuite server for high-accuracy modeling and analysis

   Joon Hong Park, Javad Baghirov, Xiao Wang, and 8 more authors

   Biophysical Society Annual Meeting, 2026

   Abstract

   Abs Bib

   Web server providing comprehensive tools for cryo-EM structure analysis and refinement.

   @article{emsuite2026,
     title = {Unlocking cryo-EM structures: The EMSuite server for high-accuracy modeling and analysis},
     author = {Park, Joon Hong and Baghirov, Javad and Wang, Xiao and Zhu, Han and Terashi, Genki and Kagaya, Yuki and Punuru, Pranav and Ling, Kai and Li, Shu and Zhang, Yuanyuan and Kihara, Daisuke},
     journal = {Biophysical Society Annual Meeting},
     year = {2026},
     note = {Abstract}
   }

2025

1. BPS

   Kihara Lab EM Webserver: A platform for automated cryo-EM structure analysis and modeling

   Javad Baghirov, Xiao Wang, Genki Terashi, and 8 more authors

   Biophysical Society Annual Meeting, 2025

   Abstract

   Abs Bib

   Web server providing comprehensive tools for cryo-EM structure analysis and refinement.

   @article{emsuite2025,
     title = {Kihara Lab EM Webserver: A platform for automated cryo-EM structure analysis and modeling},
     author = {Baghirov, Javad and Wang, Xiao and Terashi, Genki and Zhu, Han and Kagaya, Yuki and Punuru, Pranav D and Park, Joon Hong and Li, Shu and Ling, Kai and Prasad, Devashish and Kihara, Daisuke},
     journal = {Biophysical Society Annual Meeting},
     year = {2025},
     note = {Abstract}
   }

2021

1. MobiCom

   Experience: A Five-Year Retrospective of MobileInsight

   Yuanjie Li, Chunyi Peng, Zhehui Zhang, and 9 more authors

   In ACM MobiCom, 2021

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   A five-year retrospective of MobileInsight, a comprehensive platform for analyzing cellular network information on smartphones.

   @inproceedings{li2021mobileinsight,
     title = {Experience: A Five-Year Retrospective of MobileInsight},
     author = {Li, Yuanjie and Peng, Chunyi and Zhang, Zhehui and Tan, Zhaowei and Deng, Haotian and Zhao, Jinghao and Li, Qianru and Guo, Yunqi and Ling, Kai and Ding, Boyan and Li, Hewu and Lu, Songwu},
     booktitle = {ACM MobiCom},
     year = {2021},
   }

2020

1. HotMobile

   Poster: Unveiling the Missed 4.5G Performance In the Wild

   Kai Ling, Haotian Deng, Junpeng Guo, and 1 more author

   In ACM HotMobile, 2020

   Poster

   Abs Bib

   Poster presentation unveiling the deployment status and performance of LTE-Advanced Pro (4.5G) networks.

   @inproceedings{ling2020hotmobile_poster,
     title = {Poster: Unveiling the Missed 4.5G Performance In the Wild},
     author = {Ling, Kai and Deng, Haotian and Guo, Junpeng and Peng, Chunyi},
     booktitle = {ACM HotMobile},
     year = {2020},
     note = {Poster}
   }

2. HotMobile

   Unveiling the Missed 4.5G Performance In the Wild

   Haotian Deng, Kai Ling, Junpeng Guo, and 1 more author

   In ACM HotMobile, 2020

   Paper

   Abs Bib HTML PDF

   First measurement study unveiling the deployment status and performance of LTE-Advanced Pro (4.5G) networks in the wild.

   @inproceedings{deng2020hotmobile,
     title = {Unveiling the Missed 4.5G Performance In the Wild},
     author = {Deng, Haotian and Ling, Kai and Guo, Junpeng and Peng, Chunyi},
     booktitle = {ACM HotMobile},
     year = {2020},
     note = {Paper},
   }

2018

1. IMC

   MMMap: Mobility Management Map of Global Carriers Networks At Your Hands

   Kai* Ling, Jiaqi* Xu, Zhuo* Jiang, and 2 more authors

   In ACM Internet Measurement Conference (IMC), 2018

   Poster, *co-first authors

   Abs Bib

   A mobility management analysis framework for understanding 4G/LTE network coverage patterns across global carrier networks.

   @inproceedings{ling2018mmmap,
     title = {MMMap: Mobility Management Map of Global Carriers Networks At Your Hands},
     author = {Ling, Kai and Xu, Jiaqi and Jiang, Zhuo and Deng, Haotian and Peng, Chunyi},
     booktitle = {ACM Internet Measurement Conference (IMC)},
     year = {2018},
     note = {Poster, *co-first authors}
   }