3Drefine: an interactive web server for efficient protein structure refinement von Bhattacharya, Debswapna, Nowotny, Jackson, Cao, Renzhi, Cheng, Jianlin

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DeepSF: deep convolutional neural network for mapping protein sequences to folds von Hou, Jie, Adhikari, Badri, Cheng, Jianlin

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Protein tertiary structure modeling driven by deep learning and contact distance prediction in CASP13 von Hou, Jie, Wu, Tianqi, Cao, Renzhi, Cheng, Jianlin

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DeepDist: real-value inter-residue distance prediction with deep residual convolutional network von Wu, Tianqi, Guo, Zhiye, Hou, Jie, Cheng, Jianlin

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CONFOLD2: improved contact-driven ab initio protein structure modeling von Adhikari, Badri, Cheng, Jianlin

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De novo atomic protein structure modeling for cryoEM density maps using 3D transformer and HMM von Giri, Nabin, Cheng, Jianlin

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Predicting protein residue―residue contacts using deep networks and boosting von EICKHOLT, Jesse, JIANLIN CHENG

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Analysis of several key factors influencing deep learning-based inter-residue contact prediction von Wu, Tianqi, Hou, Jie, Adhikari, Badri, Cheng, Jianlin

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3Drefine: Consistent protein structure refinement by optimizing hydrogen bonding network and atomic-level energy minimization von Bhattacharya, Debswapna, Cheng, Jianlin

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Co, Mo2C encapsulated in N-doped carbon nanofiber as self-supported electrocatalyst for hydrogen evolution reaction von Wang, Jiayu, Zhu, Ruolin, Cheng, Jianlin, Song, Yuyan, Mao, Mao, Chen, Fangfang, Cheng, Yongliang

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DeepGRN: prediction of transcription factor binding site across cell-types using attention-based deep neural networks von Chen, Chen, Hou, Jie, Shi, Xiaowen, Yang, Hua, Birchler, James A, Cheng, Jianlin

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DISTEMA: distance map-based estimation of single protein model accuracy with attentive 2D convolutional neural network von Chen, Xiao, Cheng, Jianlin

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VEHiCLE: a Variationally Encoded Hi-C Loss Enhancement algorithm for improving and generating Hi-C data von Highsmith, Max, Cheng, Jianlin

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A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact data von Oluwadare, Oluwatosin, Zhang, Yuxiang, Cheng, Jianlin

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ClusterTAD: an unsupervised machine learning approach to detecting topologically associated domains of chromosomes from Hi-C data von Oluwadare, Oluwatosin, Cheng, Jianlin

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Dosage-sensitive miRNAs trigger modulation of gene expression during genomic imbalance in maize von Shi, Xiaowen, Yang, Hua, Chen, Chen, Hou, Jie, Ji, Tieming, Cheng, Jianlin, Birchler, James A.

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Improved residue contact prediction using support vector machines and a large feature set von Cheng, Jianlin, Baldi, Pierre

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Improving Protein-Ligand Interaction Modeling with cryo-EM Data, Templates, and Deep Learning in 2021 Ligand Model Challenge von Giri, Nabin, Cheng, Jianlin

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Improved protein structure reconstruction using secondary structures, contacts at higher distance thresholds, and non-contacts von Adhikari, Badri, Cheng, Jianlin

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i3Drefine software for protein 3D structure refinement and its assessment in CASP10 von Bhattacharya, Debswapna, Cheng, Jianlin

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