m6A-Driver: Identifying Context-Specific mRNA m6A Methylation-Driven Gene Interaction Networks. - Song-Yao Zhang; Shao-Wu Zhang 001; Lian Liu; Jia Meng 001; Yufei Huang 001 (PLoS Comput. Biol., 2016)

A Machine Learning Approach for Uncovering N6-methyladenosine-Disease Association. - Songyao Zhang; Shaowu Zhang 001; Xiaonan Fan 001; Jia Meng 001; Yidong Chen 002; Yufei Huang 001 (BCB, 2018)

Predicting drug response of tumors from integrated genomic profiles by deep neural networks. - Yu-Chiao Chiu; Hung-I Harry Chen; Tinghe Zhang; Songyao Zhang; Aparna Gorthi; Li-Ju Wang; Yufei Huang 001; Yidong Chen 002 (CoRR, 2018)

GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization. - Hung-I Harry Chen; Yu-Chiao Chiu; Tinghe Zhang; Songyao Zhang; Yufei Huang 001; Yidong Chen 002 (CoRR, 2018)

MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome. - Hui Liu 024; Huaizhi Wang; Zhen Wei; Songyao Zhang; Gang Hua 002; Shao-Wu Zhang 001; Lin Zhang 015; Shou-Jiang Gao; Jia Meng 001; Xing Chen 001; Yufei Huang 001 (Nucleic Acids Res., 2018)

FunDMDeep-m6A: identification and prioritization of functional differential m6A methylation genes. - Song-Yao Zhang; Shao-Wu Zhang 001; Xiao-Nan Fan 001; Teng Zhang; Jia Meng 001; Yufei Huang 001 (Bioinform., 2019)

Prediction of lncRNA-disease associations by integrating diverse heterogeneous information sources with RWR algorithm and positive pointwise mutual information. - Xiao-Nan Fan 001; Shao-Wu Zhang 001; Song-Yao Zhang; Kunju Zhu; Songjian Lu (BMC Bioinform., 2019)

Global analysis of N6-methyladenosine functions and its disease association using deep learning and network-based methods. - Song-Yao Zhang; Shaowu Zhang 001; Xiaonan Fan 001; Jia Meng 001; Yidong Chen 002; Shou-Jiang Gao; Yufei Huang 001 (PLoS Comput. Biol., 2019)

Interwound Structural and Functional Difference Between Preterm and Term Infant Brains Revealed by Multi-view CCA. - Zhibin He; Shu Zhang 001; Songyao Zhang; Yin Zhang; Xintao Hu; Xi Jiang 001; Lei Guo 002; Tianming Liu 001; Lei Du 001; Tuo Zhang (MLMI@MICCAI, 2020)

Gyral Growth Patterns of Macaque Brains Revealed by Scattered Orthogonal Nonnegative Matrix Factorization. - Songyao Zhang; Lei Du 001; Jinglei Lv; Zhibin He; Xi Jiang 001; Lei Guo 002; Li Wang 026; Tianming Liu 001; Dinggang Shen; Gang Li 001; Tuo Zhang (MLMI@MICCAI, 2020)

Funm6AViewer: a web server and R package for functional analysis of context-specific m6A RNA methylation. - Song-Yao Zhang; Shaowu Zhang 001; Yujiao Tang; Xiaonan Fan 001; Jia Meng 001 (Bioinform., 2021)

Bridging Natruralistic Stimuli, Eye Movement And Brain Activity Via Cca And Locality Preserving Projection. - Changhe Li; Jiaxing Gao; Zhibin He; Songyao Zhang; Yaonai Wei; Lei Du 001; Lei Guo 002; Junwei Han; Shu Zhang 001; Tuo Zhang (ISBI, 2022)

FMRI-Guided Time-Symmetric Joint Model for Visual Attention Prediction. - Yaonai Wei; Chong Ma; Tianyang Zhong; Lei Du 001; Tuo Zhang; Songyao Zhang; Li Yang; Tianming Liu 001; Han Zhang; Zhibin He; Muheng Shang; Junwei Han (BIBM, 2023)

Chat2Brain: A Method for Mapping Open-Ended Semantic Queries to Brain Activation Maps. - Yaonai Wei; Tianyang Zhong; Songyao Zhang; Xiao Li 024; Tuo Zhang; Lin Zhao 004; Zhengliang Liu; Muheng Shang; Tianming Liu 001; Han Zhang; Chong Ma; Lei Du 001; et al. (BIBM, 2023)

Species-Shared and -Specific Brain Functional Connectomes Revealed by Shared-Unique Variational Autoencoder. - Li Yang; Songyao Zhang; Weihan Zhang; Jingchao Zhou; Tianyang Zhong; Yaonai Wei; Xi Jiang 001; Tianming Liu 001; Junwei Han; Yixuan Yuan; Tuo Zhang (IPMI, 2023)

A Small-Sample Method with EEG Signals Based on Abductive Learning for Motor Imagery Decoding. - Tianyang Zhong; Xiaozheng Wei; Enze Shi; Jiaxing Gao; Chong Ma; Yaonai Wei; Songyao Zhang; Lei Guo 002; Junwei Han; Tianming Liu 001; Tuo Zhang (MICCAI (1), 2023)

Review of Large Vision Models and Visual Prompt Engineering. - Jiaqi Wang 010; Zhengliang Liu; Lin Zhao 004; Zihao Wu 001; Chong Ma; Sigang Yu; Haixing Dai; Qiushi Yang; Yiheng Liu; Songyao Zhang; Enze Shi; Yi Pan 001; et al. (CoRR, 2023)

Genetic Influence on Gyral Peaks. - Ying Huang 007; Tuo Zhang; Songyao Zhang; Weihan Zhang; Li Yang; Dajiang Zhu; Tianming Liu 001; Xi Jiang 001; Junwei Han; Lei Guo 002 (NeuroImage, 2023)

Fusing multi-scale functional connectivity patterns via Multi-Branch Vision Transformer (MB-ViT) for macaque brain age prediction. - Jingchao Zhou; Yuzhong Chen; Xuewei Jin; Wei Mao; Zhenxiang Xiao; Songyao Zhang; Tuo Zhang; Tianming Liu 001; Keith M. Kendrick; Xi Jiang 001 (Neural Networks, 2024)

Contrastive machine learning reveals species -shared and -specific brain functional architecture. - Li Yang; Guannan Cao; Songyao Zhang; Weihan Zhang; Yusong Sun; Jingchao Zhou; Tianyang Zhong; Yixuan Yuan; Tao Liu 044; Tianming Liu 001; Lei Guo 002; Yongchun Yu; et al. (Medical Image Anal., 2025)