ADME-AP: a database of ADME associated proteins. - Li Zhi Sun; Zhi Liang Ji; Xin Chen; J. F. Wang; Yuzong Chen 002 (Bioinform., 2002)

CLiBE: A Database of Computed Ligand Binding Energy for Ligand-receptor Complexes. - X. Chen; Zhi Liang Ji; D. G. Zhi; Yuzong Chen 002 (Comput. Chem., 2002)

TTD: Therapeutic Target Database. - X. Chen; Zhi Liang Ji; Yuzong Chen 002 (Nucleic Acids Res., 2002)

SVM-Prot: web-based support vector machine software for functional classification of a protein from its primary sequence. - Congzhong Cai; Lianyi Han; Zhi Liang Ji; X. Chen; Yuzong Chen 002 (Nucleic Acids Res., 2003)

KDBI: Kinetic Data of Bio-molecular Interactions database. - Zhi Liang Ji; X. Chen; C. J. Zheng; L. X. Yao; Lianyi Han; Wee Kiang Yeo; P. C. Chung; H. S. Puy; Y. T. Tay; A. Muhammad; Yuzong Chen 002 (Nucleic Acids Res., 2003)

TRMP: a database of therapeutically relevant multiple pathways. - C. J. Zheng; H. Zhou; B. Xie; Lianyi Han; Chun Wei Yap; Yuzong Chen 002 (Bioinform., 2004)

Effect of Molecular Descriptor Feature Selection in Support Vector Machine Classification of Pharmacokinetic and Toxicological Properties of Chemical Agents. - Ying Xue 001; Ze-Rong Li; Chun Wei Yap; Li Zhi Sun; Xin Chen; Yuzong Chen 002 (J. Chem. Inf. Model., 2004)

Prediction of P-Glycoprotein Substrates by a Support Vector Machine Approach. - Ying Xue 001; Chun Wei Yap; Li Zhi Sun; Zhi Wei Cao; J. F. Wang; Yuzong Chen 002 (J. Chem. Inf. Model., 2004)

MoViES: molecular vibrations evaluation server for analysis of fluctuational dynamics of proteins and nucleic acids. - Zhi Wei Cao; Ying Xue 001; Lianyi Han; B. Xie; H. Zhou; C. J. Zheng; Honghuang Lin; Yuzong Chen 002 (Nucleic Acids Res., 2004)

Assessment of approximate string matching in a biomedical text retrieval problem. - J. F. Wang; Z. R. Li; Congzhong Cai; Yuzong Chen 002 (Comput. Biol. Medicine, 2005)

Effect of Selection of Molecular Descriptors on the Prediction of Blood-Brain Barrier Penetrating and Nonpenetrating Agents by Statistical Learning Methods. - Hu Li; Chun Wei Yap; Choong Yong Ung; Ying Xue 001; Zhi Wei Cao; Yuzong Chen 002 (J. Chem. Inf. Model., 2005)

Prediction of Cytochrome P450 3A4, 2D6, and 2C9 Inhibitors and Substrates by Using Support Vector Machines. - Chun Wei Yap; Yuzong Chen 002 (J. Chem. Inf. Model., 2005)

Prediction of Transmembrane Proteins from Their Primary Sequence by Support Vector Machine Approach. - Congzhong Cai; Qianfei Yuan; Hanguang Xiao; Xinghua Liu; Lianyi Han; Yuzong Chen 002 (ICIC (3), 2006)

Prediction of the functional class of metal-binding proteins from sequence derived physicochemical properties by support vector machine approach. - H. H. Lin; Lianyi Han; H. L. Zhang; C. J. Zheng; B. Xie; Zhi Wei Cao; Yuzong Chen 002 (BMC Bioinform., 2006)

PEARLS: Program for Energetic Analysis of Receptor-Ligand System. - Lianyi Han; Honghuang Lin; Ze-Rong Li; C. J. Zheng; Zhi Wei Cao; B. Xie; Yuzong Chen 002 (J. Chem. Inf. Model., 2006)

PROFEAT: a web server for computing structural and physicochemical features of proteins and peptides from amino acid sequence. - Ze-Rong Li; Honghuang Lin; Lianyi Han; L. Jiang; X. Chen; Yuzong Chen 002 (Nucleic Acids Res., 2006)

DITOP: drug-induced toxicity related protein database. - Jing-Xian Zhang; Wei-Juan Huang; Jing-Hua Zeng; Wen-Hui Huang; Yi Wang; Rui Zhao; Bu-Cong Han; Qing-Feng Liu; Yuzong Chen 002; Zhi Liang Ji (Bioinform., 2007)

Efficacy of different protein descriptors in predicting protein functional families. - Serene A. K. Ong; Honghuang Lin; Yuzong Chen 002; Ze-Rong Li; Zhi Wei Cao (BMC Bioinform., 2007)

PharmGED: Pharmacogenetic Effect Database. - C. J. Zheng; Lianyi Han; B. Xie; C. Y. Liew; Serene A. K. Ong; J. Cui; H. L. Zhang; Z. Q. Tang; S. H. Gan; L. Jiang; Yuzong Chen 002 (Nucleic Acids Res., 2007)

Evaluation of Virtual Screening Performance of Support Vector Machines Trained by Sparsely Distributed Active Compounds. - Xiao Hua Ma 003; R. Wang; S. Y. Yang; Z. R. Li; Ying Xue 001; Y. C. Wei; Boon Chuan Low; Yuzong Chen 002 (J. Chem. Inf. Model., 2008)

Simulation of crosstalk between small GTPase RhoA and EGFR-ERK signaling pathway via MEKK1. - Hu Li; Choong Yong Ung; Xiao Hua Ma 003; Bao Wen Li; Boon Chuan Low; Zhi Wei Cao; Yuzong Chen 002 (Bioinform., 2009)

Simulation of DNA electrophoresis in systems of large number of solvent particles by coarse-grained hybrid molecular dynamics approach. - Rong Wang; Jian-Sheng Wang; Gui-Rong Liu; Jongyoon Han; Yuzong Chen 002 (J. Comput. Chem., 2009)

Prediction of antibacterial compounds by machine learning approaches. - Xue-Gang Yang; Duan Chen; Min Wang; Ying Xue 001; Yuzong Chen 002 (J. Comput. Chem., 2009)

Virtual Screening of Abl Inhibitors from Large Compound Libraries by Support Vector Machines. - X. H. Liu; Xiao Hua Ma 003; C. Y. Tan; Yu Yang Jiang; M. L. Go; Boon Chuan Low; Yuzong Chen 002 (J. Chem. Inf. Model., 2009)

Update of KDBI: Kinetic Data of Bio-molecular Interaction database. - Pankaj Kumar; Bu-Cong Han; Z. Shi; Jia Jia; Yupeng Wang; Y. T. Zhang; L. Liang; Q. F. Liu; Zhi Liang Ji; Yuzong Chen 002 (Nucleic Acids Res., 2009)

Computational model of VEGF, thrombin and histamine signalling network. - XiaoNa Wei; Yuzong Chen 002 (BIBM Workshops, 2010)

Identification of small molecule aggregators from large compound libraries by support vector machines. - Hanbing Rao; Ze-Rong Li; Xiang-Yuan Li; Xiaohua Ma 003; Choong Yong Ung; Hu Li; Xianghui Liu; Yuzong Chen 002 (J. Comput. Chem., 2010)

In silico prediction and screening of gamma-secretase inhibitors by molecular descriptors and machine learning methods. - Xue-Gang Yang; Wei Lv; Yuzong Chen 002; Ying Xue 001 (J. Comput. Chem., 2010)

Update of TTD: Therapeutic Target Database. - Feng Zhu 004; Bu-Cong Han; Pankaj Kumar; Xianghui Liu; Xiaohua Ma 003; XiaoNa Wei; Lu Huang; Yangfan Guo; Lianyi Han; Chanjuan Zheng; Yuzong Chen 002 (Nucleic Acids Res., 2010)

An Integrated Mathematical Model of Thrombin-, Histamine-and VEGF-Mediated Signalling in Endothelial Permeability. - XiaoNa Wei; Bu-Cong Han; Jing-Xian Zhang; X. H. Liu; C. Y. Tan; Yu Yang Jiang; Boon Chuan Low; Bruce Tidor; Yuzong Chen 002 (BMC Syst. Biol., 2011)

Effect of training data size and noise level on support vector machines virtual screening of genotoxic compounds from large compound libraries. - Pankaj Kumar; Xiaohua Ma 003; Xianghui Liu; Jia Jia; Bu-Cong Han; Ying Xue 001; Ze-Rong Li; Sheng-Yong Yang; Yu-Quan Wei; Yuzong Chen 002 (J. Comput. Aided Mol. Des., 2011)

Update of PROFEAT: a web server for computing structural and physicochemical features of proteins and peptides from amino acid sequence. - H. B. Rao; F. Zhu; G. B. Yang; Z. R. Li; Yuzong Chen 002 (Nucleic Acids Res., 2011)

HIT: linking herbal active ingredients to targets. - Hao Ye; Li Ye; Hong Kang; Duanfeng Zhang; Lin Tao; Kailin Tang; Xueping Liu; Ruixin Zhu; Qi Liu 019; Yuzong Chen 002; Yixue Li; Zhi-Wei Cao (Nucleic Acids Res., 2011)

Prediction of human major histocompatibility complex class II binding peptides by continuous kernel discrimination method. - Ju He; Guobing Yang; Hanbing Rao; Ze-Rong Li; Xianping Ding; Yuzong Chen 002 (Artif. Intell. Medicine, 2012)

Therapeutic target database update 2012: a resource for facilitating target-oriented drug discovery. - Feng Zhu 004; Zhe Shi; Chu Qin; Lin Tao; Xin Liu; Feng Xu; Li Zhang; Yang Song; Xianghui Liu; Jing-Xian Zhang; Bu-Cong Han; Peng Zhang 033; et al. (Nucleic Acids Res., 2012)

A prediction model of drug-induced ototoxicity developed by an optimal support vector machine (SVM) method. - Shu Zhou; Guo-Bo Li; Lu-Yi Huang; Huan-Zhang Xie; Ying-Lan Zhao; Yuzong Chen 002; Lin-Li Li; Sheng-Yong Yang (Comput. Biol. Medicine, 2014)

Therapeutic target database update 2014: a resource for targeted therapeutics. - Chu Qin; Cheng Zhang; Feng Zhu 004; Feng Xu; Shangying Chen; Peng Zhang 033; Ying Hong Li 002; Sheng-Yong Yang; Yu-Quan Wei; Lin Tao; Yuzong Chen 002 (Nucleic Acids Res., 2014)

CFam: a chemical families database based on iterative selection of functional seeds and seed-directed compound clustering. - Cheng Zhang; Lin Tao; Chu Qin; Peng Zhang 033; Shangying Chen; Xian Zeng; Feng Xu; Zhe Chen; Sheng-Yong Yang; Yuzong Chen 002 (Nucleic Acids Res., 2015)

Therapeutic target database update 2016: enriched resource for bench to clinical drug target and targeted pathway information. - Hong Yang; Chu Qin; Ying Hong Li 002; Lin Tao; Jin Zhou; Chun Yan Yu; Feng Xu; Zhe Chen; Feng Zhu 004; Yuzong Chen 002 (Nucleic Acids Res., 2016)

A protein network descriptor server and its use in studying protein, disease, metabolic and drug targeted networks. - Peng Zhang 033; Lin Tao; Xian Zeng; Chu Qin; Shangying Chen; Feng Zhu 004; Zerong Li; Yu Yang Jiang; Weiping Chen; Yuzong Chen 002 (Briefings Bioinform., 2017)

HEROD: a human ethnic and regional specific omics database. - Xian Zeng; Lin Tao; Peng Zhang 033; Chu Qin; Shangying Chen; Weidong He; Ying Tan; Hong Xia Liu; Sheng-Yong Yang; Zhe Chen; Yu Yang Jiang; Yuzong Chen 002 (Bioinform., 2017)

NOREVA: normalization and evaluation of MS-based metabolomics data. - Bo Li 093; Jing Tang; Qingxia Yang; Shuang Li; Xuejiao Cui; Yinghong Li 002; Yuzong Chen 002; Weiwei Xue; Xiaofeng Li; Feng Zhu 004 (Nucleic Acids Res., 2017)

Therapeutic target database update 2018: enriched resource for facilitating bench-to-clinic research of targeted therapeutics. - Ying Hong Li 002; Chun Yan Yu; Xiao Xu Li; Peng Zhang 033; Jing Tang; Qingxia Yang; Tingting Fu; Xiaoyu Zhang; Xuejiao Cui; Gao Tu; Yang Zhang 125; Shuang Li; et al. (Nucleic Acids Res., 2018)

NPASS: natural product activity and species source database for natural product research, discovery and tool development. - Xian Zeng; Peng Zhang 033; Weidong He; Chu Qin; Shangying Chen; Lin Tao; Yali Wang; Ying Tan; Dan Gao; Bo-hua Wang; Zhe Chen; Weiping Chen; et al. (Nucleic Acids Res., 2018)

Clustering Bioactive Molecules in 3D Chemical Space with Unsupervised Deep Learning. - Chu Qin; Ying Tan; Shangying Chen; Xian Zeng; Xingxing Qi; Tian Jin; Huan Shi; Yiwei Wan; Yu Chen; Jingfeng Li; Weidong He; Yali Wang; et al. (CoRR, 2019)

CMAUP: a database of collective molecular activities of useful plants. - Xian Zeng; Peng Zhang 033; Yali Wang; Chu Qin; Shangying Chen; Weidong He; Lin Tao; Ying Tan; Dan Gao; Bo-hua Wang; Zhe Chen; Weiping Chen; et al. (Nucleic Acids Res., 2019)

Clinical trials, progression-speed differentiating features and swiftness rule of the innovative targets of first-in-class drugs. - Ying Hong Li 002; Xiao Xu Li; Jiajun Hong; Yunxia Wang; Jianbo Fu; Hong Yang; Chun Yan Yu; Feng Cheng Li; Jie Hu 020; Weiwei Xue; Yu Yang Jiang; Yuzong Chen 002; et al. (Briefings Bioinform., 2020)

ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies. - Jing Tang; Jianbo Fu; Yunxia Wang; Bo Li 093; Yinghong Li 002; Qingxia Yang; Xuejiao Cui; Jiajun Hong; Xiaofeng Li; Yuzong Chen 002; Weiwei Xue; Feng Zhu 004 (Briefings Bioinform., 2020)

Consistent gene signature of schizophrenia identified by a novel feature selection strategy from comprehensive sets of transcriptomic data. - Qingxia Yang; Bo Li 093; Jing Tang; Xuejiao Cui; Yunxia Wang; Xiaofeng Li; Jie Hu 020; Yuzong Chen 002; Weiwei Xue; Yan Lou; Yunqing Qiu; Feng Zhu 004 (Briefings Bioinform., 2020)

LARMD: integration of bioinformatic resources to profile ligand-driven protein dynamics with a case on the activation of estrogen receptor. - Jing-Fang Yang; Fan Wang 039; Yuzong Chen 002; Ge-Fei Hao; Guangfu Yang (Briefings Bioinform., 2020)

Therapeutic target database 2020: enriched resource for facilitating research and early development of targeted therapeutics. - Yunxia Wang; Song Zhang; Fengcheng Li; Ying Zhou; Ying Zhang 061; Zhengwen Wang; Runyuan Zhang; Jiang Zhu; Yuxiang Ren; Ying Tan; Chu Qin; Yinghong Li 002; et al. (Nucleic Acids Res., 2020)

Erratum to: LARMD: integration of bioinformatic resources to profile ligand-driven protein dynamics with a case on the activation of estrogen receptor. - Jing-Fang Yang; Fan Wang 039; Yuzong Chen 002; Ge-Fei Hao; Guangfu Yang (Briefings Bioinform., 2021)

Histopathology classification and localization of colorectal cancer using global labels by weakly supervised deep learning. - Changjiang Zhou; Yi Jin; Yuzong Chen 002; Shan Huang; Rengpeng Huang; Yuhong Wang; Youcai Zhao; Yao Chen; Lingchuan Guo; Jun Liao (Comput. Medical Imaging Graph., 2021)

MASI: microbiota - active substance interactions database. - Xian Zeng; Xue Yang; Jiajun Fan; Ying Tan; Lingyi Ju; Wanxiang Shen; Yali Wang; Xinghao Wang; Weiping Chen; Dianwen Ju; Yuzong Chen 002 (Nucleic Acids Res., 2021)

Out-of-the-box deep learning prediction of pharmaceutical properties by broadly learned knowledge-based molecular representations. - Wan Xiang Shen; Xian Zeng; Feng Zhu 004; Ya li Wang; Chu Qin; Ying Tan; Yu Yang Jiang; Yuzong Chen 002 (Nat. Mach. Intell., 2021)

ConSIG: consistent discovery of molecular signature from OMIC data. - Fengcheng Li; Jiayi Yin; Mingkun Lu; Qingxia Yang; Zhenyu Zeng; Bing Zhang; Zhaorong Li; Yunqing Qiu; Haibin Dai; Yuzong Chen 002; Feng Zhu 004 (Briefings Bioinform., 2022)

In silico approaches uncovering the systematic function of N-phosphorylated proteins in human cells. - Shanshan Wang; Yuzong Chen 002; Songsen Fu; Yufen Zhao (Comput. Biol. Medicine, 2022)

Therapeutic target database update 2022: facilitating drug discovery with enriched comparative data of targeted agents. - Ying Zhou; Yintao Zhang; Xichen Lian; Fengcheng Li; Chaoxin Wang; Feng Zhu 004; Yunqing Qiu; Yuzong Chen 002 (Nucleic Acids Res., 2022)

DrugMAP: molecular atlas and pharma-information of all drugs. - Fengcheng Li; Jiayi Yin; Mingkun Lu; Minjie Mou; Zhaorong Li; Zhenyu Zeng; Ying Tan; Shanshan Wang; Xinyi Chu; Haibin Dai; Tingjun Hou; Su Zeng; et al. (Nucleic Acids Res., 2023)

NPASS database update 2023: quantitative natural product activity and species source database for biomedical research. - Hui Zhao; Yuan Yang; Shuaiqi Wang; Xue Yang; Kaicheng Zhou; Caili Xu; Xuyao Zhang; Jiajun Fan; Dongyue Hou; Xingxiu Li; Hanbo Lin; Ying Tan; et al. (Nucleic Acids Res., 2023)

Toward ordered -omics data science: Researchers on the magic of turning metagenomic chaos into image-like patterns. - Wan Xiang Shen; Yuzong Chen 002 (Patterns, 2023)

Enhanced metagenomic deep learning for disease prediction and consistent signature recognition by restructured microbiome 2D representations. - Wan Xiang Shen; Shu Ran Liang; Yu Yang Jiang; Yuzong Chen 002 (Patterns, 2023)

Infrared Spectral Analysis for Prediction of Functional Groups Based on Feature-Aggregated Deep Learning. - Tianyi Wang; Ying Tan; Yuzong Chen 002; Chunyan Tan (J. Chem. Inf. Model., 2023)

Deep learning of 2D-Restructured gene expression representations for improved low-sample therapeutic response prediction. - Kai Ping Cheng; Wan Xiang Shen; Yu Yang Jiang; Yan Chen; Yuzong Chen 002; Ying Tan (Comput. Biol. Medicine, 2023)