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Scientific Reports|March 23, 2019
Hierarchical Reconstruction of High-Resolution 3D Models of Large ChromosomesTuan Trieu, Oluwatosin Oluwadare, Jianlin ChengBMC Bioinformatics|March 22, 2013
Three-level prediction of protein function by combining profile-sequence search, profile-profile search, and domain co-occurrence networksZheng Wang, Renzhi Cao, Jianlin ChengBriefings in Bioinformatics|September 18, 2025
Machine learning methods for gene regulatory network inferenceAkshata Hegde, Tom Nguyen, Jianlin ChengResearch 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 NeupaneProtein Science : a Publication of the Protein Society|February 21, 2024
Protein structure accuracy estimation using geometry-complete perceptron networksAlex Morehead, Jian Liu, Jianlin ChengBiorxiv : the Preprint Server for Biology|May 4, 2026
TomoSwin3D: a Swin3D Transformer for the Identification and Classification of Macromolecules in 3D Cryo-ET TomogramsAshwin Dhakal, Rajan Gyawali, Jianlin ChengBiorxiv : the Preprint Server for Biology|July 3, 2023
Cryo2StructData: A Large Labeled Cryo-EM Density Map Dataset for AI-based Modeling of Protein StructuresNabin Giri, Liguo Wang, Jianlin ChengBMC Structural Biology|October 13, 2011
A conformation ensemble approach to protein residue-residue contactJesse Eickholt, Zheng Wang, Jianlin ChengMolecular Biosystems|August 30, 2011
A comprehensive overview of computational protein disorder prediction methodsXin Deng, Jesse Eickholt, Jianlin ChengPageof 54