Feifei Cui

According to our database, Feifei Cui authored at least 61 papers between 2021 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2026

PepGraphormer: an ESM-GAT hybrid deep learning framework for antimicrobial peptide prediction.

Changhang Lin, Shuwen Xiong, Jinjin Li, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei

J. Cheminformatics, December, 2026

FusionMVSA: Multi-View Fusion Strategy With Self-Attention for Enhancing Drug Recommendation.

Yajie Meng, Zhuang Zhang, Xudong Shang, Xianfang Tang, Jincan Li, Zilong Zhang, Feifei Cui, Shuting Jin, Junlin Xu, Peng Wang

IEEE J. Biomed. Health Informatics, February, 2026

DeepR2OM: Accurate Recognition for RNA 2′-O-Methylation Sites in Human Genome Using Deep Learning.

Jiahao Yuan, Shun Gao, Ziyuan Yan, Feifei Cui, Leyi Wei, Qingchen Zhang, Quan Zou, Zilong Zhang

IEEE Trans. Comput. Biol. Bioinform., 2026

A Multi-Modal Contrastive Learning Framework for Cyclic Peptide Permeability Prediction.

Shuwen Xiong, Feifei Cui, Zilong Zhang, Rao Zeng, Ran Su, Leyi Wei

IEEE Trans. Comput. Biol. Bioinform., 2026

DeepNhKcr: Explainable Deep Learning Framework for the Prediction of Crotonylation Sites of Non-Histone Lysine in Plants Based on Pre-Trained Protein Language Model.

Jinwei Wang, Zhenjie Luo, Aoyun Geng, Junlin Xu, Yajie Meng, Shankai Yan, Leyi Wei, Zilong Zhang, Qingchen Zhang, Quan Zou, Feifei Cui

IEEE Trans. Comput. Biol. Bioinform., 2026

MFDL-DDI: An effective deep learning-based framework for predicting drug-drug interactions through multimodal information fusion.

Yan Xia, Yazi Li, Shuting Jin, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Xin Gao, Feifei Cui

Pattern Recognit., 2026

CNNCaps-DBP: Leveraging protein language models with attention-augmented convolution for DNA-binding protein prediction.

Ziyuan Yan, Aoyun Geng, Yazi Li, Jiajing Wang, Junlin Xu, Yajie Meng, Leyi Wei, Quan Zou, Zilong Zhang, Feifei Cui

Neural Networks, 2026

Protein Solubility Prediction Using Fused Graph Convolutional Networks and Improved Attention Networks with AlphaFold3-Derived Features.

Guanjie Song, Zhenjie Luo, Aoyun Geng, Junlin Xu, Yajie Meng, Feifei Cui, Leyi Wei, Quan Zou, Zilong Zhang

J. Chem. Inf. Model., 2026

Het2Gene: a phenotype-driven model for gene prioritization by heterogeneous graph embedding.

Buchao Zhan, Xin Yang, Dongmei He, Zilong Zhang, Feifei Cui, Qingchen Zhang, Shankai Yan

Comput. Biol. Medicine, 2026

Multi-scale kernel and electrode attention network for EEG-based epileptic seizure detection.

Zheng Hu, Renhui Yi, Yuting Li, Feifei Cui, Zhihao Chen, Siying Chen, Huixing Liu, Haohuan Zhou, Ying Wan, Yanping Feng

Comput. Biol. Medicine, 2026

FPMBGCN : Feature pyramid-based multi-branch graph convolutional networks for epileptic seizure detection.

Zhongfei Zhang, Jialong Lai, Xu Zhang, Feifei Cui, Zheng Hu, Yanping Feng, Ying Wan

Biomed. Signal Process. Control., 2026

A deep adversarial network model for multi-task analysis of single-cell omics data.

Junlin Xu, Cheng Guo, Yajie Meng, Shuting Jin, Changcheng Lu, Zilong Zhang, Feifei Cui, Xiangzheng Fu, Quan Zou, Tian Tian, Xiangxiang Zeng

Briefings Bioinform., 2026

EccoMamba: Enhanced Cross-hierarchical Continuity Orthogonal Mamba for Medical Image Segmentation.

Junlin Xu, Jincan Li, Feifei Cui, Zhuang Zhang, Jialiang Yang, Shuting Jin, Qiangguo Jin, Yajie Meng

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

Generalizable Drug-Target Interaction Prediction via ESM-2 Representations and Progressive Contrastive Curriculum Learning.

Qianyang Wu, Jingwei Lv, Zilong Zhang, Feifei Cui

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

TLAGC: Taylor Linear Attention-Guided Graph Convolutions for Revealing Spatial Domains in Spatial Multi-Omics Data.

Aoyun Geng, Chunyan Cui, Yunyun Su, Zhenjie Luo, Feifei Cui, Zilong Zhang

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

2025

ProjFusNet: deep neural network for peptide precursor prediction using projection-fused protein language model and structural features.

Jinjin Li, Fang Fang, Changhang Lin, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei

J. Cheminformatics, December, 2025

RMDNet: RNA-aware dung beetle optimization-based multi-branch integration network for RNA-protein binding sites prediction.

Jiangbo Zhang, Yunhui Peng, Feifei Cui, Zilong Zhang, Shankai Yan, Qingchen Zhang

BMC Bioinform., December, 2025

GCNLA: Inferring Cell-Cell Interactions From Spatial Transcriptomics With Long Short-Term Memory and Graph Convolutional Networks.

Chao Yang, Xiuhao Fu, Zhenjie Luo, Leyi Wei, Jingbing Li, Feifei Cui, Quan Zou, Qingchen Zhang, Zilong Zhang

IEEE J. Biomed. Health Informatics, November, 2025

A Privacy-Preserving Federated Learning Method with Homomorphic Encryption in Omics Data.

Yusaku Negoya, Feifei Cui, Zilong Zhang, Miao Pan, Tomoaki Ohtsuki, Aohan Li

CoRR, November, 2025

MCAMEF-BERT: an efficient deep learning method for RNA N7-methylguanosine site prediction via multi-branch feature integration.

Junlei Yu, Wenjia Gao, Siqi Chen, Ronglin Lu, Jianbo Qiao, Junru Jin, Leyi Wei, Hua Shi, Zilong Zhang, Feifei Cui, Xinbo Jiang, Zhongmin Yan

Briefings Bioinform., September, 2025

DCMWAF-Net: Dual Cross-Modal Weighted Attention Feature Fusion Network for Multiscale Lunar Crater Detection.

Xu Zhang, Jialong Lai, Zhihao Chen, Feifei Cui, Yi Xu, Xiaoping Zhang

IEEE Trans. Geosci. Remote. Sens., 2025

ACP-ESM2: Enhancing Anticancer Peptide Prediction With Pre-Trained Protein Language Models.

Shun Gao, Yan Xia, Xingfeng Li, Feifei Cui, Qingchen Zhang, Quan Zou, Zilong Zhang

IEEE Trans. Comput. Biol. Bioinform., 2025

FERA-Net: A Novel Algorithm for Mars Water-Ice Cloud Segmentation Integrating Feature Enhancement, Residual, and Attention Mechanisms.

Xu Ma, Jialong Lai, Zhicheng Zhong, Feifei Cui

IEEE J. Sel. Top. Appl. Earth Obs. Remote. Sens., 2025

Taco-DDI: accurate prediction of drug-drug interaction events using graph transformer-based architecture and dynamic co-attention matrices.

Jianbo Qiao, Xu Guo, Junru Jin, Ding Wang, Kefei Li, Wenjia Gao, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei

Neural Networks, 2025

UMPPI: Unveiling Multilevel Protein-Peptide Interaction Prediction via Language Models.

Shuwen Xiong, Jiajie Cai, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei

J. Chem. Inf. Model., 2025

DeepMaT: Prediction of Target Peptide Classification and Cleavage Site by Combining Mamba2 and Multiple Attention Mechanisms.

Qianmao Wen, Aoyun Geng, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Quan Zou, Feifei Cui

J. Chem. Inf. Model., 2025

AcidProNet: Acidophilic Protein Classification via DCGAN-GP-Based Data Augmentation and Parameter-Shared Mixture-of-Experts Transformer.

Jiaxing Song, Aoyun Geng, Qianmao Wen, Junlin Xu, Yajie Meng, Feifei Cui, Quan Zou, Leyi Wei, Zilong Zhang

J. Chem. Inf. Model., 2025

ML-PLA: Enhancing Protein-Ligand Binding Affinity Prediction with Microenvironment and Long-Range Interaction-Aware Graph Neural Networks.

Yajie Meng, Zhuang Zhang, Jincan Li, Xianfang Tang, Changcheng Lu, Zilong Zhang, Feifei Cui, Pan Zeng, Bo Li, Junlin Xu

J. Chem. Inf. Model., 2025

Deep Learning in Antimicrobial Peptide Prediction.

Changhang Lin, Shuwen Xiong, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei

J. Chem. Inf. Model., 2025

NeuroPred-AIMP: Multimodal Deep Learning for Neuropeptide Prediction via Protein Language Modeling and Temporal Convolutional Networks.

Jinjin Li, Shuwen Xiong, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei

J. Chem. Inf. Model., 2025

GICL: A Cross-Modal Drug Property Prediction Framework Based on Knowledge Enhancement of Large Language Models.

Na Li, Jianbo Qiao, Fei Gao, Yanling Wang, Hua Shi, Zilong Zhang, Feifei Cui, Lichao Zhang, Leyi Wei

J. Chem. Inf. Model., 2025

m5U-HybridNet: Integrating an RNA Foundation Model with CNN Features for Accurate Prediction of 5-Methyluridine Modification Sites.

Xinyu Li, Zhenjie Luo, Jingwei Lv, Chao Yang, Shankai Yan, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Quan Zou, Feifei Cui

J. Chem. Inf. Model., 2025

AVP-HNCL: Innovative Contrastive Learning with a Queue-Based Negative Sampling Strategy for Dual-Phase Antiviral Peptide Prediction.

Yuanhao Li, Aoyun Geng, Zheyu Zhou, Feifei Cui, Junlin Xu, Yajie Meng, Leyi Wei, Quan Zou, Qingchen Zhang, Zilong Zhang

J. Chem. Inf. Model., 2025

ACP-CLB: An Anticancer Peptide Prediction Model Based on Multichannel Discriminative Processing and Integration of Large Pretrained Protein Language Models.

Aoyun Geng, Zhenjie Luo, Aohan Li, Zilong Zhang, Quan Zou, Leyi Wei, Feifei Cui

J. Chem. Inf. Model., 2025

Predicting drug-target interactions based on multivariate information fusion and graph contrast learning.

Siying Yang, Ping-an He, Pan Zeng, Yajie Meng, Zilong Zhang, Feifei Cui, Yuhua Yao, Jialiang Yang, Junlin Xu

J. Biomed. Informatics, 2025

Adaptive debiasing learning for drug repositioning.

Yajie Meng, Yi Wang, Xinrong Hu, Changcheng Lu, Xianfang Tang, Feifei Cui, Pan Zeng, Yuhua Yao, Jialiang Yang, Junlin Xu

J. Biomed. Informatics, 2025

Enhanced drug recommendation model with graph contrastive based on singular value decomposition.

Pan Zeng, Ling You, Bofei Zhang, Yajie Meng, Xianfang Tang, Zilong Zhang, Feifei Cui, Jing Jiang, Junlin Xu

Eng. Appl. Artif. Intell., 2025

PLM-IL4: Enhancing IL-4-inducing peptide prediction with protein language model.

Ruiqi Liu, Shankai Yan, Zilong Zhang, Junlin Xu, Yajie Meng, Qingchen Zhang, Leyi Wei, Quan Zou, Feifei Cui

Comput. Biol. Chem., 2025

ST-GCP: a graph convolutional network model with contrastive consistency and permutation for spatial transcriptomics.

Yajie Meng, Yongkang Wang, Cheng Guo, Xianfang Tang, Zilong Zhang, Feifei Cui, Xiangzheng Fu, Quan Zou, Xu Lu, Junlin Xu

Briefings Bioinform., 2025

RTCDB: A Multi-Omics Database Supporting Research and Discovery in Rare Tumor Oncology.

Yunyun Su, Binlu Yang, Aoyun Geng, Yuxuan Chen, Zilong Zhang, Feifei Cui

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2025

2024

MultiFeatVotPIP: a voting-based ensemble learning framework for predicting proinflammatory peptides.

Chaorui Yan, Aoyun Geng, Zhuoyu Pan, Zilong Zhang, Feifei Cui

Briefings Bioinform., November, 2024

Machine learning-based prediction model for distant metastasis of breast cancer.

Hao Duan, Yu Zhang, Haoye Qiu, Xiuhao Fu, Chunling Liu, Xiaofeng Zang, Anqi Xu, Ziyue Wu, Xingfeng Li, Qingchen Zhang, Zilong Zhang, Feifei Cui

Comput. Biol. Medicine, February, 2024

Toward Data Integrity Attacks Against Distributed Dynamic State Estimation in Smart Grid.

Dou An, Feiye Zhang, Feifei Cui, Qingyu Yang

IEEE Trans Autom. Sci. Eng., January, 2024

Hyb_SEnc: An Antituberculosis Peptide Predictor Based on a Hybrid Feature Vector and Stacked Ensemble Learning.

Xiuhao Fu, Hao Duan, Xiaofeng Zang, Chunling Liu, Xingfeng Li, Qingchen Zhang, Zilong Zhang, Quan Zou, Feifei Cui

IEEE ACM Trans. Comput. Biol. Bioinform., 2024

MVST: Identifying spatial domains of spatial transcriptomes from multiple views using multi-view graph convolutional networks.

Hao Duan, Qingchen Zhang, Feifei Cui, Quan Zou, Zilong Zhang

PLoS Comput. Biol., 2024

PSAC-6mA: 6mA site identifier using self-attention capsule network based on sequence-positioning.

Zheyu Zhou, Cuilin Xiao, Jinfen Yin, Jiayi She, Hao Duan, Chunling Liu, Xiuhao Fu, Feifei Cui, Qi Qi, Zilong Zhang

Comput. Biol. Medicine, 2024

DPNN-ac4C: a dual-path neural network with self-attention mechanism for identification of N4-acetylcytidine (ac4C) in mRNA.

Jiahao Yuan, Ziyi Wang, Zhuoyu Pan, Aohan Li, Zilong Zhang, Feifei Cui

Bioinform., 2024

BMPCD: A Pan-Cancer Detection Method Base on Learning Cross-Domain Feature.

Dongmei He, Xin Yang, Zilong Zhang, Feifei Cui, Shankai Yan

Proceedings of the 2024 8th International Conference on Computational Biology and Bioinformatics, 2024

RNASite: A one-stop tool website that integrates multiple RNA modification site databases and servers.

Jiahao Yuan, Xingfeng Li, Zilong Zhang, Qingchen Zhang, Quan Zou, Feifei Cui

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2024

BEES: A New Acoustic Task for Blended Emotion Estimation in Speech.

Xingfeng Li, Xiaohan Shi, Yuke Si, Zilong Zhang, Feifei Cui, Yongwei Li, Yang Liu, Masashi Unoki, Masato Akagi

Proceedings of the Asia Pacific Signal and Information Processing Association Annual Summit and Conference, 2024

2023

Human-Spa: An Online Platform Based on Spatial Transcriptome Data for Diseases of Human Systems.

Yunyun Su, Feifei Cui, Shiyu Yan, Quan Zou, Chen Cao, Zilong Zhang

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

AIPPT: Predicts anti-inflammatory peptides using the most characteristic subset of bases and sequences by stacking ensemble learning strategies.

Ruiqi Liu, Zilong Zhang, Xiuhao Fu, Shankai Yan, Feifei Cui

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

2022

webTWAS: a resource for disease candidate susceptibility genes identified by transcriptome-wide association study.

Chen Cao, Jianhua Wang, Devin Kwok, Feifei Cui, Zilong Zhang, Da Zhao, Mulin Jun Li, Quan Zou

Nucleic Acids Res., 2022

Single-cell RNA analysis reveals the potential risk of organ-specific cell types vulnerable to SARS-CoV-2 infections.

Zilong Zhang, Feifei Cui, Chen Cao, Qingsuo Wang, Quan Zou

Comput. Biol. Medicine, 2022

webSCST: an interactive web application for single-cell RNA-sequencing data and spatial transcriptomic data integration.

Zilong Zhang, Feifei Cui, Wei Su, Lijun Dou, Anqi Xu, Chen Cao, Quan Zou

Bioinform., 2022

2021

Goals and approaches for each processing step for single-cell RNA sequencing data.

Zilong Zhang, Feifei Cui, Chunyu Wang, Lingling Zhao, Quan Zou

Briefings Bioinform., November, 2021

Dielectric Properties of Lunar Materials at the Chang'e-4 Landing Site.

Jialong Lai, Feifei Cui, Yi Xu, Chaofei Liu, Ling Zhang

Remote. Sens., 2021

Computational biology and chemistry Special section editorial: Computational analyses for miRNA.

Feifei Cui, Murong Zhou, Quan Zou

Comput. Biol. Chem., 2021

Critical downstream analysis steps for single-cell RNA sequencing data.

Zilong Zhang, Feifei Cui, Chen Lin, Lingling Zhao, Chunyu Wang, Quan Zou

Briefings Bioinform., 2021

Anticancer peptides prediction with deep representation learning features.

Zhibin Lv, Feifei Cui, Quan Zou, Lichao Zhang, Lei Xu

Briefings Bioinform., 2021

IEEE Access Special Section Editorial: Feature Representation and Learning Methods With Applications in Large-Scale Biological Sequence Analysis.

Feifei Cui, Quan Zou, Qin Ma, Leyi Wei, Jijun Tang, Dariusz Mrozek

IEEE Access, 2021