Mmalloc: A Dynamic Memory Management on Many-core Coprocessor for the Acceleration of Storage-intensive Bioinformatics Application. - Zihao Wang; Mingzhe Zhang; Jingrong Zhang; Rui Yan 009; Xiaohua Wan; Zhiyong Liu 002; Fa Zhang 001; Xuefeng Cui (BIBM, 2018)

A Hybrid Convolutional and Recurrent Deep Neural Network for Breast Cancer Pathological Image Classification. - Rui Yan 009; Fei Ren; Zihao Wang; Lihua Wang; Yubo Ren; Yudong Liu; Xiaosong Rao; Chunhou Zheng 001; Fa Zhang 001 (BIBM, 2018)

Cerebrovascular Segmentation Algorithm Based on Focused Multi-Gaussians Model and Weighted 3D Markov Random Field. - Zhilong Lv; Rui Yan 009; Xinyu Liu 008; Zhongke Wu; Yicheng Zhu; Shiwei Sun; Fa Zhang 001; Xingce Wang; Xiaohua Wan (BIBM, 2019)

Predicting Tumor Mutational Burden from Liver Cancer Pathological Images Using Convolutional Neural Network. - Hong Zhang; Fa Zhang 001; Fei Ren; Zhonglie Wang; Xiaosong Rao; Li Li; Junbo Hao; Rui Yan 009; Jiancheng Luo; Ming Du (BIBM, 2019)

Integration of Multimodal Data for Breast Cancer Classification Using a Hybrid Deep Learning Method. - Rui Yan 009; Fei Ren; Xiaosong Rao; Baorong Shi; Tiange Xiang; Lingling Zhang; Yudong Liu; Jun Liang; Chunhou Zheng 001; Fa Zhang 001 (ICIC (1), 2019)

LR-Net: A Multi-task Model Using Relationship-based Contour Information to Enhance the Semantic Segmentation of Cancer Regions. - Baorong Shi; Hong Zhang; Rui Yan 009; Wang Jing; Jinfeng Zang; Fa Zhang 001 (BIBM, 2020)

NANet: Nuclei-Aware Network for Grading of Breast Cancer in HE Stained Pathological Images. - Rui Yan 009; Jintao Li 001; Xiaosong Rao; Zhilong Lv; Chunhou Zheng 001; Jinjin Dou; Xiaowen Wang; Fei Ren; Fa Zhang 001 (BIBM, 2020)

An Integration Framework for Liver Cancer Subtype Classification and Survival Prediction Based on Multi-omics Data. - Zhonglie Wang; Rui Yan 009; Jie Liu; Yudong Liu; Fei Ren; Chunhou Zheng 001; Fa Zhang 001 (ICIC (3), 2020)

PG-TFNet: Transformer-based Fusion Network Integrating Pathological Images and Genomic Data for Cancer Survival Analysis. - Zhilong Lv; Yuexiao Lin; Rui Yan 009; Zhenghe Yang; Ying Wang 043; Fa Zhang 001 (BIBM, 2021)

Decomposition-and-Fusion Network for HE-Stained Pathological Image Classification. - Rui Yan 009; Jintao Li 001; S. Kevin Zhou; Zhilong Lv; Xueyuan Zhang; Xiaosong Rao; Chunhou Zheng 001; Fei Ren; Fa Zhang 001 (ICIC (3), 2021)

Predicting Drug-Disease Associations Based on Network Consistency Projection. - Qiang Zhang; Zonglan Zuo; Rui Yan 009; Chunhou Zheng 001; Fa Zhang 001 (ICIC (3), 2021)

Richer fusion network for breast cancer classification based on multimodal data. - Rui Yan 009; Fa Zhang 001; Xiaosong Rao; Zhilong Lv; Jintao Li 001; Lingling Zhang; Shuang Liang; Yilin Li; Fei Ren; Chunhou Zheng 001; Jun Liang (BMC Medical Informatics Decis. Mak., 2021)

Predicting Drug-Disease Associations by Self-topological Generalized Matrix Factorization with Neighborhood Constraints. - Xiaoguang Li; Qiang Zhang; Zonglan Zuo; Rui Yan 009; Chunhou Zheng 001; Fa Zhang 001 (ICIC (2), 2022)

Joint Region-Attention and Multi-scale Transformer for Microsatellite Instability Detection from Whole Slide Images in Gastrointestinal Cancer. - Zhilong Lv; Rui Yan 009; Yuexiao Lin; Ying Wang 043; Fa Zhang 001 (MICCAI (2), 2022)

VP-Detector: A 3D multi-scale dense convolutional neural network for macromolecule localization and classification in cryo-electron tomograms. - Yu Hao; Xiaohua Wan; Rui Yan 009; Zhiyong Liu 002; Jintao Li 001; Shihua Zhang; Xuefeng Cui; Fa Zhang 001 (Comput. Methods Programs Biomed., 2022)

Nuclei-Guided Network for Breast Cancer Grading in HE-Stained Pathological Images. - Rui Yan 009; Fei Ren; Jintao Li 001; Xiaosong Rao; Zhilong Lv; Chunhou Zheng 001; Fa Zhang 001 (Sensors, 2022)

Histopathological bladder cancer gene mutation prediction with hierarchical deep multiple-instance learning. - Rui Yan 009; Yijun Shen; Xueyuan Zhang; Peihang Xu; Jun Wang; Jintao Li 001; Fei Ren; Dingwei Ye; S. Kevin Zhou (Medical Image Anal., 2023)

TransSurv: Transformer-Based Survival Analysis Model Integrating Histopathological Images and Genomic Data for Colorectal Cancer. - Zhilong Lv; Yuexiao Lin; Rui Yan 009; Ying Wang 043; Fa Zhang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

A Disentangled Representation-Based Multimodal Fusion Framework Integrating Pathomics and Radiomics for KRAS Mutation Detection in Colorectal Cancer. - Zhilong Lv; Rui Yan 009; Yuexiao Lin; Lin Gao; Fa Zhang 001; Ying Wang 043 (Big Data Min. Anal., 2024)

Sparse and Hierarchical Transformer for Survival Analysis on Whole Slide Images. - Rui Yan 009; Zhilong Lv; Zhidong Yang; Senlin Lin; Chun-Hou Zheng 001; Fa Zhang 001 (IEEE J. Biomed. Health Informatics, 2024)

AA-CLIP: Enhancing Zero-Shot Anomaly Detection via Anomaly-Aware CLIP. - Wenxin Ma; Xu Zhang; Qingsong Yao; Fenghe Tang; Chenxu Wu; Yingtai Li; Rui Yan 009; Zihang Jiang; S. Kevin Zhou (CVPR, 2025)

Histomorphology-driven multi-instance learning for breast cancer WSI classification. - Baizhi Wang; Rui Yan 009; Wenxin Ma; Xu Zhang; Yuhao Wang; Xiaolong Li; Yunjie Gu; Zihang Jiang; S. Kevin Zhou (CoRR, 2025)