A novel method to identify pre-microRNA in various species knowledge base. - Tianyi Zhao 001; Ningyi Zhang; Jun Ren; Peigang Xu; Zhiyan Liu; Liang Cheng 006; Yang Hu 008 (BIBM, 2016)

Identifying diseases-related metabolites based on network. - Lingling Zhao; Tianyi Zhao 001; Yang Hu 008 (BIBM, 2017)

A novel method to identify pre-microRNA in various species knowledge base on various species. - Tianyi Zhao 001; Ningyi Zhang; Ying Zhang; Jun Ren; Peigang Xu; Zhiyan Liu; Liang Cheng 006; Yang Hu 008 (J. Biomed. Semant., 2017)

A Novel Method for Identifying Alzheimer's Disease-related Proteins. - Yang Hu 008; Jun Zhang 041; Tianyi Zhao 001; Liang Cheng 006; Tianyi Zang (BIBM, 2018)

Identifying diseases-related metabolites using random walk. - Yang Hu 008; Tianyi Zhao 001; Ningyi Zhang; Tianyi Zang; Jun Zhang 041; Liang Cheng 006 (BMC Bioinform., 2018)

Identification of anticancer peptides based on Random Relevance Vector Machines. - Tianyi Zhao 001; Cheng Liang; Tianyi Zang; Yang Hu 008 (BIBM, 2019)

Identifying Alzheimer's disease-related proteins by LRRGD. - Tianyi Zhao 001; Yang Hu 008; Tianyi Zang; Liang Cheng 006 (BMC Bioinform., 2019)

DeepLGP: a novel deep learning method for prioritizing lncRNA target genes. - Tianyi Zhao 001; Yang Hu 008; Jiajie Peng; Liang Cheng 006; Pier Luigi Martelli (Bioinform., 2020)

DRACP: a novel method for identification of anticancer peptides. - Tianyi Zhao 001; Yang Hu 008; Tianyi Zang (BMC Bioinform., 2020)

Novel Multikernel Trick for Predicting Pan-CancerDistant Metastatic Sites Using a Feature Extraction Strategy. - Yining Xu; Liyuan Zhang; Xinran Cui; Tianyi Zhao 001; Yadong Wang 001 (BIBM, 2021)

Deep-DRM: a computational method for identifying disease-related metabolites based on graph deep learning approaches. - Tianyi Zhao 001; Yang Hu 008; Liang Cheng 006 (Briefings Bioinform., 2021)

Identifying drug-target interactions based on graph convolutional network and deep neural network. - Tianyi Zhao 001; Yang Hu 008; Linda R. Valsdottir; Tianyi Zang; Jiajie Peng (Briefings Bioinform., 2021)

Prediction and collection of protein-metabolite interactions. - Tianyi Zhao 001; Jinxin Liu; Xi Zeng; Wei Wang; Sheng Li; Tianyi Zang; Jiajie Peng; Yang Yang (Briefings Bioinform., 2021)

SC2disease: a manually curated database of single-cell transcriptome for human diseases. - Tianyi Zhao 001; Shuxuan Lyu; Guilin Lu; Liran Juan; Xi Zeng; Zhongyu Wei; Jianye Hao; Jiajie Peng (Nucleic Acids Res., 2021)

Metastasis-related gene identification by compound constrained NMF and a semisupervised cluster approach using pancancer multiomics features. - Yining Xu; Xinran Cui; Liyuan Zhang; Tianyi Zhao 001; Yadong Wang 001 (Comput. Biol. Medicine, 2022)

gutMDisorder v2.0: a comprehensive database for dysbiosis of gut microbiota in phenotypes and interventions. - Changlu Qi; Yiting Cai; Kai Qian; Xuefeng Li; Jialiang Ren; Ping Wang 033; Tongze Fu; Tianyi Zhao 001; Liang Cheng 006; Lei Shi; Xue Zhang (Nucleic Acids Res., 2023)

HBFormer: a single-stream framework based on hybrid attention mechanism for identification of human-virus protein-protein interactions. - Liyuan Zhang; Sicong Wang; Yadong Wang 001; Tianyi Zhao 001 (Bioinform., 2024)

Long-read sequencing unveils novel somatic variants and methylation patterns in the genetic information system of early lung cancer. - Xinran Cui; Qingyan Lin; Ming Chen; Yidan Wang; Yiwen Wang; Yadong Wang 001; Jiang Tao; Honglei Yin; Tianyi Zhao 001 (Comput. Biol. Medicine, 2024)

HGGN: Prediction of microRNA-Mediated drug sensitivity based on interpretable heterogeneous graph global-attention network. - Junliang Liu; Xinbo Zhao; Yuran Jia; Sicong Wang; Tianyi Zhao 001 (Future Gener. Comput. Syst., 2024)

SCancerRNA: Expression at the Single-cell Level and Interaction Resource of Non-coding RNA Biomarkers for Cancers. - Hongzhe Guo; Liyuan Zhang; Xinran Cui; Liang Cheng 006; Tianyi Zhao 001; Yadong Wang 001 (Genom. Proteom. Bioinform., 2024)

CellContrast: Reconstructing spatial relationships in single-cell RNA sequencing data via deep contrastive learning. - Shumin Li; Jiajun Ma; Tianyi Zhao 001; Yuran Jia; Bo Liu; Ruibang Luo; Yuanhua Huang (Patterns, 2024)

THItoGene: a deep learning method for predicting spatial transcriptomics from histological images. - Yuran Jia; Junliang Liu; Li Chen; Tianyi Zhao 001; Yadong Wang 001 (Briefings Bioinform., 2024)

KGE-UNIT: toward the unification of molecular interactions prediction based on knowledge graph and multi-task learning on drug discovery. - Chengcheng Zhang; Tianyi Zang; Tianyi Zhao 001 (Briefings Bioinform., 2024)

PUTransGCN: identification of piRNA-disease associations based on attention encoding graph convolutional network and positive unlabelled learning. - Qiuhao Chen; Liyuan Zhang; Yaojia Liu; Zhonghao Qin; Tianyi Zhao 001 (Briefings Bioinform., 2024)

ClinicViT for Predicting Primary Tumor Types and Survival Analysis of Brain Metastases Using MRI Based on Pre-Trained Large Model. - Yuzhi Sun; Junliang Liu; Jin Qiao; Liyuan Zhang; Renjie Liu; Tianyi Zhao 001 (BIBM, 2025)

GE-MFAT: Heterogeneous Graph Feature Transfer with Focusing Attention for Protein-Metabolite Interaction Prediction. - Yuzhi Sun; Renjie Liu; Liyuan Zhang; Tianyi Zhao 001 (BIBM, 2025)

GDTGO: Advancing Protein Function Prediction via Graph Convolutional Network and Iterative Optimization. - Liyuan Zhang; Yuzhi Sun; Renjie Liu; Yadong Wang 001; Tianyi Zhao 001 (BIBM, 2025)

DMGAT: predicting ncRNA-drug resistance associations based on diffusion map and heterogeneous graph attention network. - Tingyu Liu; Qiuhao Chen; Renjie Liu; Yuzhi Sun; Yadong Wang 001; Yan Zhu; Tianyi Zhao 001 (Briefings Bioinform., 2025)