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Research Square|June 30, 2025
Boosting AlphaFold Protein Tertiary Structure Prediction through MSA Engineering and Extensive Model Sampling and Ranking in CASP16Jian Liu, Pawan Neupane, Jianlin ChengResearch Square|February 20, 2025
Accurate Prediction of Protein Complex Stoichiometry by Integrating AlphaFold3 and Template InformationJianlin Cheng, Jian Liu, Pawan NeupaneCommunications Biology|November 17, 2025
Boosting AlphaFold protein tertiary structure prediction through MSA engineering and extensive model sampling and ranking in CASP16Jian Liu, Pawan Neupane, Jianlin ChengBiorxiv : the Preprint Server for Biology|May 4, 2026
Improving AlphaFold3 by Engineering MSA and Template InputsPawan Neupane, Jian Liu, Jianlin ChengBiorxiv : the Preprint Server for Biology|July 15, 2025
Boosting AlphaFold Protein Tertiary Structure Prediction through MSA Engineering and Extensive Model Sampling and Ranking in CASP16Jian Liu, Pawan Neupane, Jianlin ChengProteins|June 2, 2025
Improving AlphaFold2- and AlphaFold3-Based Protein Complex Structure Prediction With MULTICOM4 in CASP16Jian Liu, Pawan Neupane, Jianlin ChengBiorxiv : the Preprint Server for Biology|March 31, 2025
Improving AlphaFold2 and 3-based protein complex structure prediction with MULTICOM4 in CASP16Jian Liu, Pawan Neupane, Jianlin ChengBioinformatics Advances|August 13, 2025
Estimating protein complex model accuracy using graph transformers and pairwise similarity graphsJian Liu, Pawan Neupane, Jianlin ChengBiorxiv : the Preprint Server for Biology|February 20, 2025
Estimating Protein Complex Model Accuracy Using Graph Transformers and Pairwise Similarity GraphsJian Liu, Pawan Neupane, Jianlin ChengBiorxiv : the Preprint Server for Biology|January 27, 2025
Accurate Prediction of Protein Complex Stoichiometry by Integrating AlphaFold3 and Template InformationJian Liu, Pawan Neupane, Jianlin ChengPageof 761