Ruochi Zhang

43 papers A* 2B 3C 1Misc 1Journal 32Unranked 4
YearRankTypeTitle / Venue / Authors
2026 J jnl
DeepSelective: Interpretable prognosis prediction via feature selection and compression in EHR data.
Pattern Recognit.
Ruochi Zhang, Qian Yang, Xiaoyang Wang, Tian Wang, Qiong Zhou, Ziqi Deng, Kewei Li, Yueying Wang, Yusi Fan, Jiale Zhang, Lan Huang, Chang Liu, Fengfeng Zhou
2026 J jnl
PepHarmony: a multi-view contrastive learning framework for integrated sequence and structure-based peptide representation.
Neural Networks
Ruochi Zhang, Haoran Wu, Chang Liu, Huaping Li, Yuqian Wu, Kewei Li, Yifan Wang, Yifan Deng, Jiahui Chen, Fengfeng Zhou, Xin Gao
2025 J jnl
A transformer-BiGRU-based framework with data augmentation and confident learning for network intrusion detection.
CoRR
Jiale Zhang, Pengfei He, Fei Li, Kewei Li, Yan Wang, Lan Huang, Ruochi Zhang, Fengfeng Zhou
2025 A* conf
DeepMolTex: Deep Alignment of Molecular Graphs with Large Language Models via Mixture of Modality Experts.
ACM Multimedia
Mingliang Yan, Yanhua Yu, Ruochi Zhang, Zhiyuan Liu, Ruicheng Zhang, Yimeng Ren, Kangkang Lu, Zhiyong Huang, Feng Luo, Zhen Cai
2025 J jnl
DeepSelective: Feature Gating and Representation Matching for Interpretable Clinical Prediction.
CoRR
Ruochi Zhang, Qian Yang, Xiaoyang Wang, Haoran Wu, Qiong Zhou, Yu Wang, Kewei Li, Yueying Wang, Yusi Fan, Jiale Zhang, Lan Huang, Chang Liu, Fengfeng Zhou
2025 J jnl
GraCEImpute: A novel graph clustering autoencoder approach for imputation of single-cell RNA-seq data.
Comput. Biol. Medicine
Yueying Wang, Kewei Li, Ruochi Zhang, Yusi Fan, Lan Huang, Fengfeng Zhou
2025 J jnl
HeFS: Helper-Enhanced Feature Selection via Pareto-Optimized Genetic Search.
CoRR
Yusi Fan, Tian Wang, Zhiying Yan, Chang Liu, Qiong Zhou, Qi Lu, Zhehao Guo, Ziqi Deng, Wenyu Zhu, Ruochi Zhang, Fengfeng Zhou
2025 J jnl
Information Entropy Invariance: Enhancing Length Extrapolation in Attention Mechanisms.
CoRR
Kewei Li, Yanwen Kong, Yiping Xu, Jianlin Su, Lan Huang, Ruochi Zhang, Fengfeng Zhou
2025 J jnl
MolProphecy: Bridging Medicinal Chemists' Knowledge and Molecular Pre-Trained Models via a Multi-Modal Framework.
CoRR
Jianping Zhao, Qiong Zhou, Tian Wang, Yusi Fan, Qian Yang, Li Jiao, Chang Liu, Zhehao Guo, Qi Lu, Fengfeng Zhou, Ruochi Zhang
2025 J jnl
PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids.
Briefings Bioinform.
Ruochi Zhang, Haoran Wu, Chang Liu, Qian Yang, Yuting Xiu, Kewei Li, Ningning Chen, Yu Wang, Yan Wang, Xin Gao, Fengfeng Zhou
2025 J jnl
TaiChiNet: PCA-based Ying-Yang dilution of inter- and intra-BERT layers to represent anti-coronavirus peptides.
Expert Syst. Appl.
Kewei Li, Shiying Ding, Zhe Guo, Yusi Fan, Hongmei Liu, Yannan Sun, Gongyou Zhang, Ruochi Zhang, Lan Huang, Fengfeng Zhou
2024 J jnl
AMPCliff: quantitative definition and benchmarking of activity cliffs in antimicrobial peptides.
CoRR
Kewei Li, Yuqian Wu, Yutong Guo, Yinheng Li, Yusi Fan, Ruochi Zhang, Lan Huang, Fengfeng Zhou
2024 J jnl
FairCare: Adversarial training of a heterogeneous graph neural network with attention mechanism to learn fair representations of electronic health records.
Inf. Process. Manag.
Yan Wang, Ruochi Zhang, Qian Yang, Qiong Zhou, Shengde Zhang, Yusi Fan, Lan Huang, Kewei Li, Fengfeng Zhou
2024 J jnl
HELM-GPT:
Bioinform.
Xiaopeng Xu, Chencheng Xu, Wenjia He, Lesong Wei, Haoyang Li, Juexiao Zhou, Ruochi Zhang, Yu Wang, Yuanpeng Xiong, Xin Gao
2024 J jnl
MolFeSCue: enhancing molecular property prediction in data-limited and imbalanced contexts using few-shot and contrastive learning.
Bioinform.
Ruochi Zhang, Chao Wu, Qian Yang, Chang Liu, Yan Wang, Kewei Li, Lan Huang, Fengfeng Zhou
2024 J jnl
PepHarmony: A Multi-View Contrastive Learning Framework for Integrated Sequence and Structure-Based Peptide Encoding.
CoRR
Ruochi Zhang, Haoran Wu, Chang Liu, Huaping Li, Yuqian Wu, Kewei Li, Yifan Wang, Yifan Deng, Jiahui Chen, Fengfeng Zhou, Xin Gao
2024 J jnl
Pre-trained Hypergraph Convolutional Neural Networks with Self-supervised Learning.
Trans. Mach. Learn. Res.
Yihe Deng, Ruochi Zhang, Pan Xu, Jian Ma, Quanquan Gu
2023 J jnl
AB-Gen: Antibody Library Design with Generative Pre-Trained Transformer and Deep Reinforcement Learning.
Genom. Proteom. Bioinform.
Xiaopeng Xu, Tiantian Xu, Juexiao Zhou, Xingyu Liao, Ruochi Zhang, Yu Wang, Lu Zhang, Xin Gao
2023 J jnl
OCMR: A comprehensive framework for optical chemical molecular recognition.
Comput. Biol. Medicine
Yan Wang, Ruochi Zhang, Shengde Zhang, Liming Guo, Qiong Zhou, Bowen Zhao, Xiaotong Mo, Qian Yang, Yajuan Huang, Kewei Li, Yusi Fan, Lan Huang, Fengfeng Zhou
2023 J jnl
Orchestrating information across tissues via a novel multitask GAT framework to improve quantitative gene regulation relation modeling for survival analysis.
Briefings Bioinform.
Meiyu Duan, Yueying Wang, Dong Zhao, Hongmei Liu, Gongyou Zhang, Kewei Li, Haotian Zhang, Lan Huang, Ruochi Zhang, Fengfeng Zhou
2023 J jnl
PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids.
CoRR
Ruochi Zhang, Haoran Wu, Yuting Xiu, Kewei Li, Ningning Chen, Yu Wang, Yan Wang, Xin Gao, Fengfeng Zhou
2022 B conf
Ultrafast and Interpretable Single-Cell 3D Genome Analysis with Fast-Higashi.
RECOMB
Ruochi Zhang, Tianming Zhou, Jian Ma
2021 J jnl
Correction to "XGraphBoost: Extracting Graph Neural Network-Based Features for a Better Prediction of Molecular Properties".
J. Chem. Inf. Model.
Daiguo Deng, Xiaowei Chen, Ruochi Zhang, Zengrong Lei, Xiaojian Wang, Fengfeng Zhou
2021 J jnl
XGraphBoost: Extracting Graph Neural Network-Based Features for a Better Prediction of Molecular Properties.
J. Chem. Inf. Model.
Daiguo Deng, Xiaowei Chen, Ruochi Zhang, Zengrong Lei, Xiaojian Wang, Fengfeng Zhou
2020 J jnl
False Data Injection and Detection in LQG Systems: A Game Theoretic Approach.
IEEE Trans. Control. Netw. Syst.
Ruochi Zhang, Parv Venkitasubramaniam
2020 A* conf
Hyper-SAGNN: a self-attention based graph neural network for hypergraphs.
ICLR
Ruochi Zhang, Yuesong Zou, Jian Ma
2020 J jnl
Optimal Local Differentially Private Quantization.
IEEE Trans. Signal Process.
Ruochi Zhang, Parv Venkitasubramaniam
2020 B conf
Probing Multi-way Chromatin Interaction with Hypergraph Representation Learning.
RECOMB
Ruochi Zhang, Jian Ma
2019 J jnl
Hyper-SAGNN: a self-attention based graph neural network for hypergraphs.
CoRR
Ruochi Zhang, Yuesong Zou, Jian Ma
2018 Misc conf
Mutual-Information-Private Online Gradient Descent Algorithm.
ICASSP
Ruochi Zhang, Parv Venkitasubramaniam
2018 — conf
Optimal Distribution Mapping for Inference Privacy.
APSIPA
Ruochi Zhang, Parv Venkitasubramaniam
2018 — conf
Optimal Multi-Source Inference Privacy - A Generalized Lloyd-Max Algorithm.
Allerton
Ruochi Zhang, Parv Venkitasubramaniam
2018 J jnl
Predicting CTCF-mediated chromatin loops using CTCF-MP.
Bioinform.
Ruochi Zhang, Yuchuan Wang, Yang Yang, Yang Zhang, Jian Ma
2018 J jnl
TriZ-a rotation-tolerant image feature and its application in endoscope-based disease diagnosis.
Comput. Biol. Medicine
Ruixue Zhao, Ruochi Zhang, Tongyu Tang, Xin Feng, Jialiang Li, Yue Liu, Renxiang Zhu, Guangze Wang, Kangning Li, Wenyang Zhou, Yunfei Yang, Yuzhao Wang, Yuanjie Ba, Jiaojiao Zhang, Yang Liu, Fengfeng Zhou
2018 J jnl
pyHIVE, a health-related image visualization and engineering system using Python.
BMC Bioinform.
Ruochi Zhang, Ruixue Zhao, Xinyang Zhao, Di Wu, Weiwei Zheng, Xin Feng, Fengfeng Zhou
2017 — conf
A game theoretic approach to analyze false data injection and detection in LQG system.
CNS
Ruochi Zhang, Parv Venkitasubramaniam
2017 J jnl
Exploiting sequence-based features for predicting enhancer-promoter interactions.
Bioinform.
Yang Yang, Ruochi Zhang, Shashank Singh, Jian Ma
2017 J jnl
MUSTv2: An Improved De Novo Detection Program for Recently Active Miniature Inverted Repeat Transposable Elements (MITEs).
J. Integr. Bioinform.
Ruiquan Ge, Guoqin Mai, Ruochi Zhang, Xundong Wu, Qing Wu, Fengfeng Zhou
2017 J jnl
Stealthy Control Signal Attacks in Linear Quadratic Gaussian Control Systems: Detectability Reward Tradeoff.
IEEE Trans. Inf. Forensics Secur.
Ruochi Zhang, Parv Venkitasubramaniam
2016 C conf
Stealthy control signal attacks in vector LQG systems.
ACC
Ruochi Zhang, Parv Venkitasubramaniam
2015 — conf
Stealthy control signal attacks in scalar LQG systems.
GlobalSIP
Ruochi Zhang, Parv Venkitasubramaniam
2011 J jnl
Select-the-Best-Ones: A new way to judge relative relevance.
Inf. Process. Manag.
Ruihua Song, Qingwei Guo, Ruochi Zhang, Guomao Xin, Ji-Rong Wen, Yong Yu, Hsiao-Wuen Hon
2008 B conf
GeoLife: Managing and Understanding Your Past Life over Maps.
MDM
Yu Zheng, Longhao Wang, Ruochi Zhang, Xing Xie, Wei-Ying Ma