Ruochi Zhang

According to our database, Ruochi Zhang authored at least 30 papers between 2008 and 2024.

Collaborative distances:

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

2024

FairCare: Adversarial training of a heterogeneous graph neural network with attention mechanism to learn fair representations of electronic health records.

Yan Wang, Ruochi Zhang, Qian Yang, Qiong Zhou, Shengde Zhang, Yusi Fan, Lan Huang, Kewei Li, Fengfeng Zhou

Inf. Process. Manag., March, 2024

AMPCliff: quantitative definition and benchmarking of activity cliffs in antimicrobial peptides.

Kewei Li, Yuqian Wu, Yutong Guo, Yinheng Li, Yusi Fan, Ruochi Zhang, Lan Huang, Fengfeng Zhou

CoRR, 2024

PepHarmony: A Multi-View Contrastive Learning Framework for Integrated Sequence and Structure-Based Peptide Encoding.

Ruochi Zhang, Haoran Wu, Chang Liu, Huaping Li, Yuqian Wu, Kewei Li, Yifan Wang, Yifan Deng, Jiahui Chen, Fengfeng Zhou, Xin Gao

CoRR, 2024

MolFeSCue: enhancing molecular property prediction in data-limited and imbalanced contexts using few-shot and contrastive learning.

Ruochi Zhang, Chao Wu, Qian Yang, Chang Liu, Yan Wang, Kewei Li, Lan Huang, Fengfeng Zhou

Bioinform., 2024

HELM-GPT: <i>de novo</i> macrocyclic peptide design using generative pre-trained transformer.

Xiaopeng Xu, Chencheng Xu, Wenjia He, Lesong Wei, Haoyang Li, Juexiao Zhou, Ruochi Zhang, Yu Wang, Yuanpeng Xiong, Xin Gao

Bioinform., 2024

2023

OCMR: A comprehensive framework for optical chemical molecular recognition.

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

Comput. Biol. Medicine, September, 2023

Orchestrating information across tissues via a novel multitask GAT framework to improve quantitative gene regulation relation modeling for survival analysis.

Meiyu Duan, Yueying Wang, Dong Zhao, Hongmei Liu, Gongyou Zhang, Kewei Li, Haotian Zhang, Lan Huang, Ruochi Zhang, Fengfeng Zhou

Briefings Bioinform., July, 2023

AB-Gen: Antibody Library Design with Generative Pre-Trained Transformer and Deep Reinforcement Learning.

Xiaopeng Xu, Tiantian Xu, Juexiao Zhou, Xingyu Liao, Ruochi Zhang, Yu Wang, Lu Zhang, Xin Gao

Genom. Proteom. Bioinform., 2023

PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids.

Ruochi Zhang, Haoran Wu, Yuting Xiu, Kewei Li, Ningning Chen, Yu Wang, Yan Wang, Xin Gao, Fengfeng Zhou

CoRR, 2023

2022

Ultrafast and Interpretable Single-Cell 3D Genome Analysis with Fast-Higashi.

Ruochi Zhang, Tianming Zhou, Jian Ma

Proceedings of the Research in Computational Molecular Biology, 2022

2021

Correction to "XGraphBoost: Extracting Graph Neural Network-Based Features for a Better Prediction of Molecular Properties".

Daiguo Deng, Xiaowei Chen, Ruochi Zhang, Zengrong Lei, Xiaojian Wang, Fengfeng Zhou

J. Chem. Inf. Model., 2021

XGraphBoost: Extracting Graph Neural Network-Based Features for a Better Prediction of Molecular Properties.

Daiguo Deng, Xiaowei Chen, Ruochi Zhang, Zengrong Lei, Xiaojian Wang, Fengfeng Zhou

J. Chem. Inf. Model., 2021

2020

Optimal Local Differentially Private Quantization.

Ruochi Zhang, Parv Venkitasubramaniam

IEEE Trans. Signal Process., 2020

False Data Injection and Detection in LQG Systems: A Game Theoretic Approach.

Ruochi Zhang, Parv Venkitasubramaniam

IEEE Trans. Control. Netw. Syst., 2020

Probing Multi-way Chromatin Interaction with Hypergraph Representation Learning.

Ruochi Zhang, Jian Ma

Proceedings of the Research in Computational Molecular Biology, 2020

Hyper-SAGNN: a self-attention based graph neural network for hypergraphs.

Ruochi Zhang, Yuesong Zou, Jian Ma

Proceedings of the 8th International Conference on Learning Representations, 2020

2018

TriZ-a rotation-tolerant image feature and its application in endoscope-based disease diagnosis.

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

Comput. Biol. Medicine, 2018

pyHIVE, a health-related image visualization and engineering system using Python.

Ruochi Zhang, Ruixue Zhao, Xinyang Zhao, Di Wu, Weiwei Zheng, Xin Feng, Fengfeng Zhou

BMC Bioinform., 2018

Predicting CTCF-mediated chromatin loops using CTCF-MP.

Ruochi Zhang, Yuchuan Wang, Yang Yang, Yang Zhang, Jian Ma

Bioinform., 2018

Mutual-Information-Private Online Gradient Descent Algorithm.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the 2018 IEEE International Conference on Acoustics, 2018

Optimal Distribution Mapping for Inference Privacy.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the Asia-Pacific Signal and Information Processing Association Annual Summit and Conference, 2018

Optimal Multi-Source Inference Privacy - A Generalized Lloyd-Max Algorithm.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the 56th Annual Allerton Conference on Communication, 2018

2017

Stealthy Control Signal Attacks in Linear Quadratic Gaussian Control Systems: Detectability Reward Tradeoff.

Ruochi Zhang, Parv Venkitasubramaniam

IEEE Trans. Inf. Forensics Secur., 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, Fengfeng Zhou

J. Integr. Bioinform., 2017

Exploiting sequence-based features for predicting enhancer-promoter interactions.

Yang Yang, Ruochi Zhang, Shashank Singh, Jian Ma

Bioinform., 2017

A game theoretic approach to analyze false data injection and detection in LQG system.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the 2017 IEEE Conference on Communications and Network Security, 2017

2016

Stealthy control signal attacks in vector LQG systems.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the 2016 American Control Conference, 2016

2015

Stealthy control signal attacks in scalar LQG systems.

Ruochi Zhang, Parv Venkitasubramaniam

Proceedings of the 2015 IEEE Global Conference on Signal and Information Processing, 2015

2011

Select-the-Best-Ones: A new way to judge relative relevance.

Ruihua Song, Qingwei Guo, Ruochi Zhang, Guomao Xin, Ji-Rong Wen, Yong Yu, Hsiao-Wuen Hon

Inf. Process. Manag., 2011

2008

GeoLife: Managing and Understanding Your Past Life over Maps.

Yu Zheng, Longhao Wang, Ruochi Zhang, Xing Xie, Wei-Ying Ma

Proceedings of the 9th International Conference on Mobile Data Management (MDM 2008), 2008