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BMC Genomics|November 9, 2016
Chromosome3D: reconstructing three-dimensional chromosomal structures from Hi-C interaction frequency data using distance geometry simulated annealingBadri Adhikari, Tuan Trieu, 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 ChengMethods in Molecular Biology (Clifton, N.J.)|November 22, 2024
Improving Protein Secondary Structure Prediction by Deep Language Models and Transformer NetworksTianqi Wu, Weihang Cheng, Jianlin ChengBiorxiv : the Preprint Server for Biology|September 24, 2024
CryoTEN: Efficiently Enhancing Cryo-EM Density Maps Using TransformersJoel Selvaraj, Liguo Wang, Jianlin ChengBiorxiv : the Preprint Server for Biology|October 24, 2023
Accurate prediction of protein tertiary structural changes induced by single-site mutations with equivariant graph neural networksSajid Mahmud, Alex Morehead, Jianlin ChengCommunications Biology|April 27, 2026
PreStoi allows accurate prediction of protein complex stoichiometry by integrating AlphaFold3 and template informationJian Liu, Pawan Neupane, Jianlin ChengBioinformatics (Oxford, England)|June 5, 2016
UniCon3D: de novo protein structure prediction using united-residue conformational search via stepwise, probabilistic samplingDebswapna Bhattacharya, Renzhi Cao, Jianlin ChengBioinformatics (Oxford, England)|December 12, 2017
DNCON2: improved protein contact prediction using two-level deep convolutional neural networksBadri Adhikari, Jie Hou, Jianlin ChengBMC Genomics|February 24, 2018
A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact dataOluwatosin Oluwadare, Yuxiang Zhang, Jianlin ChengPageof 54