📝 发表

📖 期刊论文

（* 共同第一作者，# 通讯作者）

BMC Bioinformatics 2016

McTwo: a two-step feature selection algorithm based on maximal information coefficient
Ruiquan Ge*, Manli Zhou*, Youxi Luo*, Qinghan Meng, Guoqin Mai#, Dongli Ma#, Guoqing Wang#, and Fengfeng Zhou#.

• McTwo utilizes the Maximal Information Coefficient (MIC) to identify features with strong associations to phenotypes while minimizing redundancy among selected features.
• Academic Impact: McTwo has been cited in various scholarly articles, indicating its contribution to the field of bioinformatics and its role in advancing feature selection methodologies.
• Industry Impact: While specific industrial applications are not detailed in the article, the principles underlying McTwo have the potential to influence data analysis strategies in biotechnology and pharmaceutical industries, particularly in areas requiring efficient handling of high-dimensional data.

• Neural Networks (2025) ICH-PRNet: A cross-modal intracerebral haemorrhage prognostic prediction method using joint-attention interaction mechanism, Xinlei Yu, Ahmed Elazab, Ruiquan Ge#, Jichao Zhu, Lingyan Zhang, Gangyong Jia, Qing Wu, Xiang Wan, Lihua Li#, and Changmiao Wang# (中科院Top期刊)

• Expert Systems with Applications (2025) LPUWF-LDM: Enhanced Latent Diffusion Model for Precise Late-phase UWF-FA Generation on Limited Dataset, Zhaojie Fang, Xiao Yu, Guanyu Zhou, Ke Zhuang, Yifei Chen, Ruiquan Ge#, Changmiao Wang#, Gangyong Jia, Qing Wu, Juan Ye, Maimaiti Nuliqiman, Peifang Xu, Ahmed Elazab (中科院Top期刊)

• Interdisciplinary Sciences (2025, Accepted) MultiKD-DTA: Enhancing Drug-Target Affinity Prediction through Multiscale Feature Extraction, Riqian Hu, Ruiquan Ge#, Guojian Deng, Jin Fan, Bowen Tang, Changmiao Wang#

• Knowledge-Based Systems (2025) InfraFFN: A Feature Fusion Network leveraging dual-path convolution and self-attention for infrared image super-resolution, Qin Feiwei, Zhengwei Shen, Ruiquan Ge, Kai Zhang, Fei Lin, Yeru Wang, Juan M. Gorriz, Ahmed Elazab, Changmiao Wang (中科院Top期刊)

• Frontiers in Pharmacology (2025) Efficient substructure feature encoding based on graph neural network blocks for drug-target interaction prediction, Guojian Deng, Changsheng Shi, Ruiquan Ge#, Riqian Hu, Changmiao Wang, Feiwei Qin, Cheng Pan, Haixia Mao#, and Qing Yang#

• IEEE JBHI (2024) UWAFA-GAN: Ultra-Wide-Angle Fluorescein Angiography Transformation via Multi-scale Generation and Registration Enhancement, Ruiquan Ge, Zhaojie Fang, Pengxue Wei, Zhanghao Chen, Hongyang Jiang, Ahmed Elazab, Wangting Li, Xiang Wan, Shaochong Zhang, Changmiao Wang (中科院Top期刊)

• Alexandria Engineering Journal (2025) ID-UNet: A densely connected UNet architecture for infrared small target segmentation, Diankun Chen, Feiwei Qin, Ruiquan Ge#, Yong Peng, and Changmiao Wang#

• Alexandria Engineering Journal (2025) IDTransformer: Infrared image denoising method based on convolutional transposed self-attention, Zhengwei Shen, Feiwei Qin, Ruiquan Ge#, Changmiao Wang#, Kai Zhang, and Jie Huang#

• IEEE/ACM Transactions on Computational Biology and Bioinformatics (2024) HybAVPnet: a Novel Hybrid Network Architecture for Antiviral Peptides Prediction, Ruiquan Ge#, Yixiao Xia, Minchao Jiang, Gangyong Jia, Xiaoyang Jing, Ye Li, and Yunpeng Cai# (CCF B)

• IEEE/ACM Transactions on Computational Biology and Bioinformatics (2024) TDFFM: Transformer and Deep Forest Fusion Model for Predicting Coronavirus 3C-Like Protease Cleavage Sites, Qingsong Wang, Ruiquan Ge#, Changmiao Wang#, Ahmed Elazab, Qiming Fang, and Renfeng Zhang# (CCF B)

• Journal of Cheminformatics (2024) Automated molecular structure segmentation from documents using ChemSAM, Bowen Tang, Zhangming Niu, Xiaofeng Wang, Junjie Huang, Chao Ma, Jing Peng, Yinghui Jiang, Ruiquan Ge, Hongyu Hu, Luhao Lin, and Guang Yang# (IF=8.6)

• Multimedia Systems (2024) Mmy-net: a multimodal network exploiting image and patient metadata for simultaneous segmentation and diagnosis, Renshu Gu, Yueyu Zhang, Lisha Wang, Dechao Chen, Yaqi Wang, Ruiquan Ge, Zicheng Jiao, Juan Ye, Gangyong Jia, and Linyan Wang. (CCF C)

• Mammalian Genome (2024) Identification of important gene signatures in schizophrenia through feature fusion and genetic algorithm, Zhixiong Chen, Ruiquan Ge#, Changmiao Wang, Ahmed Elazab, Xianjun Fu, Wenwen Min, Feiwei Qin, Gangyong Jia, and Xiaopeng Fan.

• Mathematics (2024) Boundary-Match U-Shaped Temporal Convolutional Network for Vulgar Action Segmentation, Zhengwei Shen, Ran Xu, Yongquan Zhang, Feiwei Qin, Ruiquan Ge, Changmiao Wang, and Masahiro Toyoura.

• Multimedia Tools and Applications (2024) LKFormer: large kernel transformer for infrared image super-resolution, Feiwei Qin, Kang Yan, Changmiao Wang, Ruiquan Ge#, Yong Peng, and Kai Zhang. (CCF C)

• Journal of King Saud University-Computer and Information Sciences (2023) Fine-grained imbalanced leukocyte classification with global-local attention transformer, Ben Chen, Feiwei Qin, Yanli Shao, Jin Cao, Yong Peng, and Ruiquan Ge.

• IEEE Journal of Biomedical and Health Informatics (2023) Sketch-supervised Histopathology Tumour Segmentation: Dual CNN-Transformer with Global Normalised CAM, Yilong Li, Linyan Wang, Xingru Huang, Yaqi Wang, Le Dong, Ruiquan Ge, Huiyu Zhou, Juan Ye, and Qianni Zhang. (中科院Top期刊)

• IEEE Journal of Biomedical and Health Informatics (2023) CDNet: Contrastive Disentangled Network for Fine-Grained Image Categorization of Ocular B-Scan Ultrasound, Ruilong Dan, Yunxiang Li, Yijie Wang, Xiaodiao Chen, Gangyong Jia, Shuai Wang, Ruiquan Ge, et al. (中科院Top期刊)

• Frontiers in Medicine (2022) Self-supervised learning mechanism for identification of eyelid malignant melanoma in pathologic slides with limited annotation, Linyan Wang, Zijing Jiang, An Shao, Zhengyun Liu, Renshu Gu, Ruiquan Ge, Gangyong Jia, Yaqi Wang, and Juan Ye.

• Computational Biology and Chemistry (2021) MD-UNET: Multi-input dilated U-shape neural network for segmentation of bladder cancer, Ruiquan Ge, Huihuang Cai, Xin Yuan, Feiwei Qin, Yan Huang, Pu Wang, and Lei Lyu.

• Computers in Biology and Medicine (2022) ME-ACP: Multi-view neural networks with ensemble model for identification of anticancer peptides, Guanwen Feng, Hang Yao, Chaoneng Li, Ruyi Liu, Rungen Huang, Xiaopeng Fan, Ruiquan Ge#, Qiguang Miao#.(中科院Top期刊， IF=7.7)

• 计算机工程 (2020) 基于多视图架构深度神经网络的图像威胁识别, 叶晴昊, 涂岱键, 毕奇, 秦飞巍, 葛瑞泉, 白静.

• Journal of Computational Biology (2022) SuccSPred2.0: A Two-Step Model to Predict Succinylation Sites Based on Multifeature Fusion and Selection Algorithm, Yixiao Xia(本科生), Minchao Jiang, Yizhang Luo, Guanwen Feng, Gangyong Jia, Hua Zhang, Pu Wang#, Ruiquan Ge#.

• Frontiers in Genetics (2022) i2APP: A Two-Step Machine Learning Framework For Antiparasitic Peptides Identification, Minchao Jiang（本科生）, Renfeng Zhang, Yixiao Xia, Gangyong Jia, Yuyu Yin, Pu Wang#, Jian Wu#, Ruiquan Ge#.

• Frontiers in Genetics (2020) EnACP: An Ensemble Learning Model for Identification of Anticancer Peptides, Ruiquan Ge, Guanwen Feng, Xiaoyang Jing, Renfeng Zhang, Pu Wang, Qing Wu.

• IEEE Access (2020) Prediction of Chronic Diseases With Multi-Label Neural Network, Ruiquan Ge*, Renfeng Zhang*, Pu Wang#. (DOI: 10.1109/ACCESS.2020.3011374)

• Journal of Integrative Bioinformatics (2017) MUSTv2: An Improved De Novo Detection Program for Recently Active Miniature Inverted Repeat Transposable Elements (MITEs), Ruiquan Ge*, Guoqin Mai*, Ruochi Zhang*, Xundong Wu, Qing Wu#, and Fengfeng Zhou#.

• Scientific Reports (2016) CRISPRdigger: detecting CRISPRs with better direct repeat annotations, Ruiquan Ge*, Guoqin Mai*, Pu Wang, Manli Zhou, Youxi Luo, Yunpeng Cai#, and Fengfeng Zhou#.

• Frontiers in Medicine (2022) Self-supervised learning mechanism for identification of eyelid malignant melanoma in pathologic slides with limited annotation, Linyan Wang, Zijing Jiang, An Shao, Zhengyun Liu, Renshu Gu, Ruiquan Ge, Gangyong Jia, Yaqi Wang, and Juan Ye.

• IEEE Access (2020) A Virtual End-to-End Learning System for Robot Navigation Based on Temporal Dependencies, Yanqiu Zhang, Ruiquan Ge#, Lei Lyu#, Jinling Zhang, Chen Lyu, and Xiaojuan Yang.

• Interdisciplinary Sciences: Computational Life Sciences (2017) Rectified-Linear-Unit-Based Deep Learning for Biomedical Multi-label Data, Pu Wang*, Ruiquan Ge*, Xuan Xiao, Yunpeng Cai#, Guoqing Wang#, and Fengfeng Zhou#.

• Scientific Reports (2017) Multi-label Learning for Predicting the Activities of Antimicrobial Peptides, Pu Wang*, Ruiquan Ge*, Liming Liu, Xuan Xiao, Ye Li, and Yunpeng Cai.

• BioMed Research International (2016) A comprehensive curation demonstrates the dynamic evolutionary patterns of prokaryotic CRISPRs, Guoqin Mai*, Ruiquan Ge*, Guoquan Sun, Qinghan Meng, and Fengfeng Zhou#.

• IEEE/ACM Transactions on Computational Biology and Bioinformatics (2016) hMuLab: a biomedical Hybrid Multi-LABel classifier based on multiple linear regression, Pu Wang, Ruiquan Ge, Xuan Xiao, Manli Zhou, and Fengfeng Zhou#.

🖊️ 会议论文

• IEEE ISBI (2025)ITCFN: Incomplete Triple-Modal Co-Attention Fusion Network for Mild Cognitive Impairment Conversion Prediction, Xiangyang Hu, Xiangyu Shen, Yifei Sun, Xuhao Shan, Wenwen Min, Liyilei Su, Xiaomao Fan, Ahmed Elazab, Ruiquan Ge#, Changmiao Wang, and Xiaopeng Fan.

• IEEE ISBI (2025)CSF-Net: Cross-Modal Spatiotemporal Fusion Network for Pulmonary Nodule Malignancy Prediction, Yin Shen, Zhaojie Fang, Ke Zhuang, Guanyu Zhou, Xiao Yu, Yucheng Zhao, Yuan Tian, Ruiquan Ge#, Changmiao Wang, Xiaopeng Fan, and Ahmed Elazab.

• IEEE ISBI (2025)TMI-CLNet: Triple-Modal Interaction Network for Chronic Liver Disease Prognosis From Imaging, Clinical, and Radiomic Data Fusion, Linglong Wu, Xuhao Shan, Ruiquan Ge#, Ruoyu Liang, Chi Zhang, Yonghong Li, Ahmed Elazab, Huoling Luo, Yunbi Liu, and Changmiao Wang.

• IEEE BIBM (2024)ICH-SCNet: Intracerebral Hemorrhage Segmentation and Prognosis Classification Network Using CLIP-guided SAM mechanism, Xinlei Yu, Ahmed Elazab, Ruiquan Ge, Hui Jin, Xinchen Jiang, Gangyong Jia, Qing Wu, Qinglei Shi, and Changmiao Wang. (CCF B)

• 2024 International Conference on Intelligent Computing (2024)Infrared image super-resolution via lightweight information split network, Shijie Liu, Kang Yan, Feiwei Qin, Changmiao Wang, Ruiquan Ge, Kai Zhang, Jie Huang, Yong Peng, and Jin Cao. (CCF C)

• 2024 International Symposium on Bioinformatics Research and Applications (2024)CircMAN: Multi-channel Attention Networks Based on Feature Fusion for CircRNA-Binding Protein Site Prediction, Huiliang Luo, Guojian Deng, Riqian Hu, Ruiquan Ge#, Feiwei Qin#, and Changmiao Wang. (CCF C)

• IEEE ISBI (2024)TC-DiffRecon: Texture coordination MRI reconstruction method based on diffusion model and modified MF-UNet method, Chenyan Zhang, Yifei Chen, Zhenxiong Fan, Yiyu Huang, Wenchao Weng, Ruiquan Ge#, Dong Zeng, and Changmiao Wang#. Oral Presentation

• IEEE ISBI (2024)PE-MVCNet: Multi-view and Cross-modal Fusion Network for Pulmonary Embolism Prediction, Zhaoxin Guo, Zhipeng Wang, Ruiquan Ge#, Jianxun Yu, Feiwei Qin, Yuan Tian, Yuqing Peng, Yonghong Li, and Changmiao Wang. (Oral Presentation)

• IEEE ISBI (2024)BS-Diff: Effective Bone Suppression Using Conditional Diffusion Models from Chest X-Ray Images, Zhanghao Chen, Yifei Sun, Ruiquan Ge#, Wenjian Qin, Cheng Pan, Wenming Deng, Zhou Liu, Wenwen Min, Ahmed Elazab, Xiang Wan, Changmiao Wang#. (Oral Presentation). DOI: 10.1109/ISBI56570.2024.10635371.

• IEEE ISBI (2024)ICHPro: Intracerebral Hemorrhage Prognosis Classification Via Joint-attention Fusion-based 3d Cross-modal Network, Xinlei Yu, Xinyang Li, Ruiquan Ge#, Shibin Wu, Ahmed Elazab, Jichao Zhu, Lingyan Zhang, Gangyong Jia, Taosheng Xu, Xiang Wan, Changmiao Wang#. Oral Presentation. DOI: 10.1109/ISBI56570.2024.10635317.

• IEEE BIBM (2023)GCS-ICHNet: Assessment of Intracerebral Hemorrhage Prognosis using Self-Attention with Domain Knowledge Integration, Xuhao Shan, Xinyang Li, Ruiquan Ge#, Shibin Wu, Ahmed Elazab, Jichao Zhu, Lingyan Zhang, et al. (CCF B).

• International Conference MICCAI (2023)UWAT-GAN: Fundus Fluorescein Angiography Synthesis via Ultra-Wide-Angle Transformation Multi-scale GAN, Zhaojie Fang, Zhanghao Chen(本科生), Pengxue Wei, Wangting Li, Shaochong Zhang, Ahmed Elazab, Gangyong Jia (本科生), Ruiquan Ge#, Changmiao Wang#. (医学图像顶会, Early Acceptance). DOI: 10.1007/978-3-031-43990-2_70. (Note: “本科生” indicates undergraduate students.)

• MICCAI Workshop CMMCA (2023)MPSurv: End-to-End Multi-model Pseudo-Label Model for Brain Tumor Survival Prediction with Population Information Integration, Qingsong Wang(本科生), Xin Lin(本科生), Ruiquan Ge#, Ahmed Elazab, Xiangyang Hu, Jionghao Cheng, Yuqing Peng, Xiang Wan, Changmiao Wang#. （Best Paper）. (Note: “本科生” indicates undergraduate students.)

• IEEE BIBM (2022)MSF-SleepNet: Multi-Stream Fusion Network with Contrastive Learning for Sleep Stage Classification, Jingrui Chen, Yujie Li, Jing Xiao, Ruiquan Ge#, Wenjun Ma, Xiaomao Fan. (CCF B).

• Computational Mathematics Modeling in Cancer Analysis: First International Workshop, CMMCA (Singapore, September 18,2022)Light Annotation Fine Segmentation: Histology Image Segmentation Based on VGG Fusion with Global Normalisation CAM, Yilong Li, Yaqi Wang, Le Dong, Juan Ye, Linyan Wang, Ruiquan Ge, Huiyu Zhou, Qianni Zhang. Cham: Springer Nature Switzerland.

• Bioinformatics Research and Applications, ISBRA (2021)SuccSPred: Succinylation Sites Prediction Using Fused Feature Representation and Ranking Method, Ruiquan Ge, Yizhang Luo, Guanwen Feng, Gangyong Jia, Hua Zhang, Chong Xu, Gang Xu, Pu Wang. Springer, Cham. (CCF C).

• APBC (2021)MD-UNET: Multi-input Dilated U-shape Neural Network for Segmentation of Bladder Cancer, Ruiquan Ge, Huihuang Cai, Xin Yuan, Feiwei Qin, Yan Huang, Pu Wang, Lei Lyu. Tainan, Taiwan. (CCF C).

• IEEE BIBM (2020)Prediction of anticancer peptides with dictionary learning method, Ruiquan Ge, Xiaomao Fan, Pu Wang. Seoul, Korea (South). (CCF B).

• IEEE BIBM (2020)ProFPred: a two-step protein function prediction model based on sequence and evolutionary information, Ruiquan Ge, Guanwen Feng, Pu Wang, Qiguang Miao. (CCF B).

• IJCNN (2018)CTF-PSF: Coupled Tensor Factorization with Partially Shared Factors, Qing Wu, Xingfei Li, Quan Do, Jin Fan, Ruiquan Ge#, Jie Wang. (CCF C).

• IJCNN (2018)iBQPSO: an Improved BQPSO Algorithm for Feature Selection, Qing Wu, Yuanfeng Shen, Zheping Ma, Jin Fan, Ruiquan Ge. (CCF C).

• 4th IEEE Broadband Network and Multimedia Technology (2011)An Intelligent Surveillance System Based on Motion Detection, Ruiquan Ge, Zhenfang Shan, Hao Kou.

📚 著作

• Recent Advances in Biological Network Analysis [Chapter] (2021) Computational Methods for Protein–Protein Interaction Network Alignment, Ruiquan Ge, Qing Wu, Jinbo Xu

• Frontiers in Genetics (2022) [Editor] Machine learning for peptide structure, function, and design, Ruiquan Ge, Chuan Dong, Juexin Wang, Yanjie Wei

🔎 专利

• 授权公告号：CN 112908418 B 一种基于字典学习的氨基酸序列特征提取方法

• 授权公告号：CN 114093427 B 一种基于深度学习和机器学习的抗病毒肽预测方法

• 授权公告号：CN 114093512 B 一种基于多模态数据和深度学习模型的生存预测方法