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Bioinformatics (Oxford, England)|February 13, 2010
MULTICOM: a multi-level combination approach to protein structure prediction and its assessments in CASP8Zheng Wang, Jesse Eickholt, Jianlin ChengBioinformatics (Oxford, England)|March 4, 2025
CryoTEN: efficiently enhancing cryo-EM density maps using transformersJoel Selvaraj, Liguo Wang, Jianlin ChengBMC Bioinformatics|February 3, 2011
DoBo: Protein domain boundary prediction by integrating evolutionary signals and machine learningJesse Eickholt, Xin Deng, Jianlin ChengJournal of Proteomics & Bioinformatics|October 31, 2017
A Template-Based Protein Structure Reconstruction Method Using Deep Autoencoder LearningHaiou Li, Qiang Lyu, Jianlin ChengProteins|December 24, 2005
Prediction of protein stability changes for single-site mutations using support vector machinesJianlin Cheng, Arlo Randall, Pierre BaldiBMC Bioinformatics|December 23, 2009
PreDisorder: ab initio sequence-based prediction of protein disordered regionsXin Deng, Jesse Eickholt, Jianlin ChengIEEE/ACM Transactions on Computational Biology and Bioinformatics|March 10, 2015
A Deep Learning Network Approach to ab initio Protein Secondary Structure PredictionMatt Spencer, Jesse Eickholt, Jianlin ChengBioinformatics (Oxford, England)|May 5, 2023
Atomic protein structure refinement using all-atom graph representations and SE(3)-equivariant graph transformerTianqi Wu, Zhiye Guo, Jianlin ChengMethods in Molecular Biology (Clifton, N.J.)|July 2, 2025
TransFun: A Tool of Integrating Large Language Models, Transformers, and Equivariant Graph Neural Networks to Predict Protein FunctionFrimpong Boadu, Ahhyun Lee, 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 ChengPageof 30