Second antibody modeling assessment (AMA-II)

Almagro, Juan C., Teplyakov, Alexey, Luo, Jinquan, Sweet, Raymond W., Kodangattil, Sreekumar, Hernandez‐Guzman, Francisco, Gilliland, Gary L.·2014·Proteins Structure Function and Bioinformatics
DOI 10.1002/prot.24567

Cited by (144)

Items 101–144 of 144

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  4. Computational Immunogenetics
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  9. Homology Modeling of Antibody Variable Regions: Methods and Applications
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  10. De novo discovery of antibody drugs – great promise demands scrutiny
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  11. Antibodies: Computer-Aided Prediction of Structure and Design of Function
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  12. Monoclonal Antibodies
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  13. Structural pre-training improves physical accuracy of antibody structure prediction using deep learning.
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  15. Protein Structure Prediction and Homology Modeling
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  16. Alternative Methods to Animal Use for Monoclonal Antibody Generation and Production
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  17. AbFold -- an AlphaFold Based Transfer Learning Model for Accurate Antibody Structure Prediction
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  18. Considerations for Using Phage Display Technology in Therapeutic Antibody Drug Discovery
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  19. Computational Modeling of Antibody and T-Cell Receptor (CDR3 Loops)
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  20. Best Practices in Assessing the Developability of Biopharmaceutical Candidates
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  21. Affinity maturation of TCR-like antibodies using phage display guided by structural modeling
    Rahel Frick, Lene Støkken Høydahl, Ina Hodnebrug, Erik Sebastian Vik, Bjørn Dalhus, Ludvig Magne Sollid, Jeffrey J. Gray, Inger Sandlie, Geir Åge Løset · 2022 · Protein Engineering Design and Selection
  22. RosettaCM for antibodies with very long HCDR3s and low template availability
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  23. Open Innovation Platform using Cloud-based Applications and Collaborative Space: A Case Study of Solubility Prediction Model Development
    Tsuyoshi Esaki, Keiko Kumazawa, Kazutoshi Takahashi, Reiko Watanabe, Tomohide Masuda, Hirofumi Watanabe, Yugo Shimizu, Akitoshi Okada, Seisuke Takimoto, Tomohiro Shimada et al. · 2020 · Chem-Bio Informatics Journal
  24. H3-OPT: Accurate prediction of CDR-H3 loop structures of antibodies with deep learning
    Chen, Hedi, Fan, Xiaoyu, Zhu, Shuqian, Pei, Yuchan, Zhang, Xiaochun, Zhang, Xiaonan, Liu, Lihang, Qian, Feng, Tian, Boxue · 2023
  25. H3-OPT: Accurate prediction of CDR-H3 loop structures of antibodies with deep learning
    Hedi Chen, Xiaoyu Fan, Shuqian Zhu, Yuchan Pei, Xiaochun Zhang, Xiaonan Zhang, Lihang Liu, Feng Qian, Boxue Tian · 2024 · eLife
  26. Modeling of Antibody Variable Region with Bioinformatics, Simulation and Expert Intuition
    Hiroki Shirai · 2017 · Seibutsu Butsuri
  27. In Silico Technologies for Antibody Drug Discovery
    Hiroki Shirai · 2017 · TRENDS IN THE SCIENCES
  28. Antibody Modeling, Engineering, and Design
    Sharon Fischman, Yanay Ofran · 2018 · Springer eBooks
  29. Faculty Opinions recommendation of Structural diversity in a human antibody germline library.
    Yasmina Noubia Abdiche · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
  30. Modeling of Antibody and T-Cell Receptor Structures
    Kamilla Kjærgaard Jensen, Anna Chailyan, Davide Cirillo, Anna Luna Tramontano, Paolo Marcatili · 2018 · Springer eBooks
  31. H3-OPT: Accurate prediction of CDR-H3 loop structures of antibodies with deep learning
    Hedi Chen, Xiaoyu Fan, Shuqian Zhu, Yuchan Pei, Xiaochun Zhang, Xiaonan Zhang, Lihang Liu, Feng Qian, Boxue Tian · 2023 · eLife
  32. H3-OPT: Accurate prediction of CDR-H3 loop structures of antibodies with deep learning
    Hedi Chen, Xiaoyu Fan, Shuqian Zhu, Yuchan Pei, Xiaochun Zhang, Xiaonan Zhang, Lihang Liu, Feng Qian, Boxue Tian · 2024 · eLife
  33. ImmuFold: High-Accuracy Antibody Structure Prediction with Efficient Network
    Shengyuan Bai, Zijing Liu, Jiying Zhang, Yu Li · 2024 · IEEE International Conference on Bioinformatics and Biomedicine (BIBM)
  34. CDRxAbs: antibody small-molecule conjugates with computationally designed target-binding synergy
    Jingzhou Wang, Aiden J. Aceves, Nicholas J Friesenhahn, Stephen L. Mayo · 2025 · Protein Engineering Design and Selection
  35. Integrating deep learning with physics based modeling enables high precision antibody antigen interface prediction
    Kanchanok Kodchakorn, Piyachat Udomwong, Thanathat Pamonsupornwichit, Thanyaluck Phitak, Chatchai Tayapiwatana · 2026 · Scientific Reports
  36. Protein structure prediction
    Andrew R. Leach, Juan Carlos Mobarec · 2026 · Elsevier eBooks
  37. A docking-based method for in silico epitope determination
    Shifa Tahir · 2018 · theses.fr (ABES)
  38. Development and assessment of protein loop modeling methods : Application to CDR loops in antibodies
    Amélie Barozet · 2019
  39. Variant-aware computational assessment of neutralizing antibody binding robustness to botulinum toxin A
    Eqram Rahman, Parinitha Rao, Golam Saklayen, Alain Michon, Munim Ahmed, John H. Joseph, William Richard Webb · 2026 · Toxicon
  40. Antibody Affinity Maturation by Computational Design
    Esam Tolba Abualrous, Wade Miller, Daniel A. Cannon · 2026 · Methods in molecular biology
  41. Complementarity of Deep Learning and Physics-Based Approaches in the Design of New Antibodies
    Floriane Eshak, Anne Goupil-Lamy · 2026 · Methods in molecular biology
  42. From Single Cells to Silicon: Emerging Technologies Transforming Monoclonal Antibody Discovery
    Victoria Sherwood, Denise Harold, Richard J O’Kennedy, Christine Loscher, Paul Leonard · 2026 · Antibodies
  43. The Evolution of Artificial Intelligence in Antibody Design: From Structure-Based Engineering to Generative Models
    Ida Szataniak, Kacper Packi · 2026 · Antibodies
  44. Relation-Aware Graph–Hypergraph Networks for Antibody Sequence–Structure Co-Design
    Jinzhu Wei, Shuijun Zhang, Hongliang Duan, Leyi Wei, JINGJING GUO · 2026 · bioRxiv (Cold Spring Harbor Laboratory)