Chengkun Wu

68 papers A* 2B 7C 4Misc 1Journal 38Unranked 16
YearRankTypeTitle / Venue / Authors
2026 J jnl
A Neural Time-Series Learning Method for Accelerating Free-Energy Perturbation and Rare-Event Molecular Dynamics Simulations.
J. Chem. Inf. Model.
Mengxia Mo, Haiyang Yu, Chengkun Wu, Zhijian Xu, Jie Liu, Wei-qing Huang, Leyun Wu, Can Leng, Wangdong Yang, Kenli Li
2025 B conf
DTRAG: Triple-Fusion Retrieval-Augmented Generation Leveraging a Knowledge Graph for Answering Diabetes Questions.
IEEE Big Data
Jin Zhang, Huiling Liu, Wengen Li, Jianquan Wen, Yuan Zhao, Jianing Chen, Jian Liu, Chengkun Wu
2025 J jnl
LLM-based Multi-Agent Copilot for Quantum Sensor.
CoRR
Rong Sha, Binglin Wang, Jun Yang, Xiaoxiao Ma, Chengkun Wu, Liang Yan, Chao Zhou, Jixun Liu, Guochao Wang, Shuhua Yan, Lingxiao Zhu
2025 — conf
Long-Tailed Recognition via Multi-sampling Classifier Fusion with Frozen CLIP.
ICIC (12)
Yilou Zhang, Yunjie Liu, Yuan Zhao, Chengkun Wu
2025 J jnl
Parallelization Strategies for DeepMD-Kit Using OpenMP: Enhancing Efficiency in Machine Learning-Based Molecular Simulations.
IEEE Trans. Computers
Qi Du, Feng Wang, Chengkun Wu
2025 J jnl
Pushing the boundaries of few-shot learning for low-data drug discovery with a Bayesian meta-learning hypernetwork framework.
Briefings Bioinform.
Jiacai Yi, Dejun Jiang, Chengkun Wu, Xiao-Chen Zhang, Weixing He, Wentao Zhao, Dong-Sheng Cao
2025 C conf
Scaling Deep Learning Molecular Dynamics to 500M Atoms on 4096-Node ARMv8 Clusters.
CLUSTER
Qi Du, Feng Wang, Chengkun Wu, Han Wang, Yongpeng Liu, Zhaoyin Zhou, Kenli Li
2024 J jnl
ChemMORT: an automatic ADMET optimization platform using deep learning and multi-objective particle swarm optimization.
Briefings Bioinform.
Jiacai Yi, Ziyi Yang, Wen-Tao Zhao, Zhi-Jiang Yang, Xiao-Chen Zhang, Chengkun Wu, Ai-Ping Lu, Dong-Sheng Cao
2024 — conf
Exploring Natural Language Processing Model Acceleration in Molecular Dynamics Simulation Using High-Performance Computing and Machine Learning.
BIBM
Qi Du, Feng Wang, Hui Huang, Heng Wan, Xiaoyu Wu, Chengkun Wu
2024 J jnl
HFN: Heterogeneous feature network for multivariate time series anomaly detection.
Inf. Sci.
Jun Zhan, Chengkun Wu, Canqun Yang, Qiucheng Miao, Xiandong Ma
2024 J jnl
Pre-training molecular representation model with spatial geometry for property prediction.
Comput. Biol. Chem.
Yishui Li, Wei Wang, Jie Liu, Chengkun Wu
2023 J jnl
An Open Source Graph-Based Weighted Cycle Closure Method for Relative Binding Free Energy Calculations.
J. Chem. Inf. Model.
Yishui Li, Runduo Liu, Jie Liu, Haibin Luo, Chengkun Wu, Zhe Li
2023 — conf
BioNet+: A Comprehensive Interaction Model of Finding Therapeutics for Diseases with Graph Deep Learning.
HPCC/DSS/SmartCity/DependSys
Jing-Lun Ma, Yanlong Qiu, Canqun Yang, Chengkun Wu
2023 — conf
DrugProtKGE: Weakly Supervised Knowledge Graph Embedding for Highly-Effective Drug-Protein Interaction Representation.
BIBM
Yanlong Qiu, Siqi Wang, Xi Yang, Xinyuan Qiu, Chengkun Wu, Yingbo Cui, Canqun Yang
2023 J jnl
Free energy perturbation-based large-scale virtual screening for effective drug discovery against COVID-19.
Int. J. High Perform. Comput. Appl.
Zhe Li, Chengkun Wu, Yishui Li, Runduo Liu, Kai Lu, Ruibo Wang, Jie Liu, Chunye Gong, Canqun Yang, Xin Wang, Chang-Guo Zhan, Hai-Bin Luo
2023 J jnl
Molecular dynamics study on the behavior and binding mechanism of target protein Transgelin-2 with its agonist TSG12 for anti-asthma drug discovery.
Comput. Biol. Medicine
Leyun Wu, Guangpu Wang, Liping Zhou, Mengxia Mo, Yulong Shi, Bo Li, Leimiao Yin, Qiang Zhao, Yongqing Yang, Chengkun Wu, Zhijian Xu, Weiliang Zhu
2022 J jnl
A risk factor attention-based model for cardiovascular disease prediction.
BMC Bioinform.
Yan-Long Qiu, Wei Wang, Chengkun Wu, Zhichang Zhang
2022 J jnl
ABC-Net: a divide-and-conquer based deep learning architecture for SMILES recognition from molecular images.
Briefings Bioinform.
Xiao-Chen Zhang, Jiacai Yi, Guo-Ping Yang, Chengkun Wu, Tingjun Hou, Dong-Sheng Cao
2022 — conf
An Unsupervised Short- and Long-Term Mask Representation for Multivariate Time Series Anomaly Detection.
ICONIP (6)
Qiucheng Miao, Chuanfu Xu, Jun Zhan, Dong Zhu, Chengkun Wu
2022 J jnl
An Unsupervised Short- and Long-Term Mask Representation for Multivariate Time Series Anomaly Detection.
CoRR
Qiucheng Miao, Chuanfu Xu, Jun Zhan, Dong Zhu, Chengkun Wu
2022 J jnl
BioNet: a large-scale and heterogeneous biological network model for interaction prediction with graph convolution.
Briefings Bioinform.
Xi Yang, Wei Wang, Jing-Lun Ma, Yan-Long Qiu, Kai Lu, Dong-Sheng Cao, Chengkun Wu
2022 J jnl
DDInter: an online drug-drug interaction database towards improving clinical decision-making and patient safety.
Nucleic Acids Res.
Guo-Li Xiong, Zhi-Jiang Yang, Jiacai Yi, Ningning Wang, Lei Wang, Huimin Zhu, Chengkun Wu, Ai-Ping Lu, Xiang Chen, Shao Liu, Tingjun Hou, Dongsheng Cao
2022 A* conf
Deep Anomaly Discovery from Unlabeled Videos via Normality Advantage and Self-Paced Refinement.
CVPR
Guang Yu, Siqi Wang, Zhiping Cai, Xinwang Liu, Chuanfu Xu, Chengkun Wu
2022 J jnl
DeepKG: an end-to-end deep learning-based workflow for biomedical knowledge graph extraction, optimization and applications.
Bioinform.
Zongren Li, Qin Zhong, Jing Yang, Yongjie Duan, Wenjun Wang, Chengkun Wu, Kunlun He
2022 A* conf
Effective Video Abnormal Event Detection by Learning A Consistency-Aware High-Level Feature Extractor.
ACM Multimedia
Guang Yu, Siqi Wang, Zhiping Cai, Xinwang Liu, Chengkun Wu
2022 J jnl
Exploring the Binding Affinity and Mechanism between ACE2 and the Trimers of Delta and Omicron Spike Proteins by Molecular Dynamics Simulation and Bioassay.
J. Chem. Inf. Model.
Liping Zhou, Tingting Liu, Mengxia Mo, Yulong Shi, Leyun Wu, Yishui Li, Qiuping Qin, Weiliang Zhu, Chengkun Wu, Likun Gong, Zhijian Xu
2022 J jnl
HFN: Heterogeneous Feature Network for Multivariate Time Series Anomaly Detection.
CoRR
Jun Zhan, Chengkun Wu, Canqun Yang, Qiucheng Miao, Xiandong Ma
2022 J jnl
MICER: a pre-trained encoder-decoder architecture for molecular image captioning.
Bioinform.
Jiacai Yi, Chengkun Wu, Xiao-Chen Zhang, Xinyi Xiao, Yanlong Qiu, Wentao Zhao, Tingjun Hou, Dong-Sheng Cao
2022 J jnl
ParaCopasi: A package for parallel biochemical simulation and analysis.
J. Comput. Chem.
Lihuan Yuan, Chengkun Wu, Xiaowei Guo, Canqun Yang
2022 Misc conf
Stgat-Mad : Spatial-Temporal Graph Attention Network For Multivariate Time Series Anomaly Detection.
ICASSP
Jun Zhan, Siqi Wang, Xiandong Ma, Chengkun Wu, Canqun Yang, Detian Zeng, Shilin Wang
2021 — conf
AA-LSTM: An Adversarial Autoencoder Joint Model for Prediction of Equipment Remaining Useful Life.
PAKDD (1)
Dong Zhu, Chengkun Wu, Chuanfu Xu, Zhenghua Wang
2021 J jnl
ADMETlab 2.0: an integrated online platform for accurate and comprehensive predictions of ADMET properties.
Nucleic Acids Res.
Guo-Li Xiong, Zhenxing Wu, Jiacai Yi, Li Fu, Zhi-Jiang Yang, Chang-Yu Hsieh, Mingzhu Yin, Xiangxiang Zeng, Chengkun Wu, Aiping Lu, Xiang Chen, Tingjun Hou, Dong-Sheng Cao
2021 J jnl
Correction to: Mining a stroke knowledge graph from literature.
BMC Bioinform.
Xi Yang, Chengkun Wu, Goran Nenadic, Wei Wang, Kai Lu
2021 — conf
Drug-drug interaction extraction from biomedical texts based on multi-attention mechanism.
ICBRA
Chengkun Wu, Wei Wang, Xi Yang, Canqun Yang
2021 — conf
Efficient Distributed Stochastic Gradient Descent Through Gaussian Averaging.
ICAIS (1)
Kaifan Hu, Chengkun Wu, En Zhu
2021 C conf
Joint motion context and clip augmentation for spatio-temporal action detection.
ICMV
Xurui Ma, Xiang Zhang, Chengkun Wu, Chuanfu Xu, Jie Liu, Zhigang Luo
2021 J jnl
Learning to SMILES: BAN-based strategies to improve latent representation learning from molecules.
Briefings Bioinform.
Chengkun Wu, Xiao-Chen Zhang, Zhi-Jiang Yang, Ai-Ping Lu, Tingjun Hou, Dong-Sheng Cao
2021 J jnl
MG-BERT: leveraging unsupervised atomic representation learning for molecular property prediction.
Briefings Bioinform.
Xiao-Chen Zhang, Chengkun Wu, Zhi-Jiang Yang, Zhen-Xing Wu, Jiacai Yi, Chang-Yu Hsieh, Tingjun Hou, Dong-Sheng Cao
2021 J jnl
Mining a stroke knowledge graph from literature.
BMC Bioinform.
Xi Yang, Chengkun Wu, Goran Nenadic, Wei Wang, Kai Lu
2021 J jnl
Mining microbe-disease interactions from literature via a transfer learning model.
BMC Bioinform.
Chengkun Wu, Xinyi Xiao, Canqun Yang, Jinxiang Chen, Jiacai Yi, Yanlong Qiu
2020 J jnl
CGINet: graph convolutional network-based model for identifying chemical-gene interaction in an integrated multi-relational graph.
BMC Bioinform.
Wei Wang, Xi Yang, Chengkun Wu, Canqun Yang
2019 — conf
Parallel Computing for Large-Scale Author Name Disambiguation in MEDLINE.
HPCC/SmartCity/DSS
Anyao Tang, Chengkun Wu, Jie Liu, Wei Wang, Xi Yang, Yuting Xing
2018 B conf
Collaborative Subspace Graph Hashing for Cross-modal Retrieval.
ICMR
Xiang Zhang, Guohua Dong, Yimo Du, Chengkun Wu, Zhigang Luo, Canqun Yang
2018 J jnl
Constructing a database for the relations between CNV and human genetic diseases via systematic text mining.
BMC Bioinform.
Xi Yang, Zhuo Song, Chengkun Wu, Wei Wang, Gen Li, Wei Zhang, Lingqian Wu, Kai Lu
2018 J jnl
Distributed and asynchronous Stochastic Gradient Descent with variance reduction.
Neurocomputing
Yuewei Ming, Yawei Zhao, Chengkun Wu, Kuan Li, Jianping Yin
2018 J jnl
mSNP: A Massively Parallel Algorithm for Large-Scale SNP Detection.
IEEE Trans. Parallel Distributed Syst.
Yingbo Cui, Shaoliang Peng, Yutong Lu, Xiaoqian Zhu, Bingqiang Wang, Chengkun Wu, Xiangke Liao
2017 J jnl
Dependency-based long short term memory network for drug-drug interaction extraction.
BMC Bioinform.
Wei Wang, Xi Yang, Canqun Yang, Xiaowei Guo, Xiang Zhang, Chengkun Wu
2017 J jnl
GTZ: a fast compression and cloud transmission tool optimized for FASTQ files.
BMC Bioinform.
Yuting Xing, Gen Li, Zhenguo Wang, Bolun Feng, Zhuo Song, Chengkun Wu
2017 — conf
High Performance Coordinate Descent Matrix Factorization for Recommender Systems.
Conf. Computing Frontiers
Xi Yang, Jianbin Fang, Jing Chen, Chengkun Wu, Tao Tang, Kai Lu
2017 J jnl
P-Hint-Hunt: a deep parallelized whole genome DNA methylation detection tool.
BMC Genom.
Shaoliang Peng, Shunyun Yang, Ming Gao, Xiangke Liao, Jie Liu, Canqun Yang, Chengkun Wu, Wenqiang Yu
2017 B conf
SVRG with adaptive epoch size.
IJCNN
Erxue Min, Yawei Zhao, Jun Long, Chengkun Wu, Kuan Li, Jianping Yin
2016 J jnl
Automatic cytoplasm and nuclei segmentation for color cervical smear image using an efficient gap-search MRF.
Comput. Biol. Medicine
Lili Zhao, Kuan Li, Mao Wang, Jianping Yin, En Zhu, Chengkun Wu, Siqi Wang, Chengzhang Zhu
2016 — conf
Predicting Unknown Interactions Between Known Drugs and Targets via Matrix Completion.
PAKDD (1)
Qing Liao, Naiyang Guan, Chengkun Wu, Qian Zhang
2015 B conf
A Method to Accelerate GROMACS in Offload Mode on Tianhe-2 Supercomputer.
CCGRID
Haiqiang Wang, Shaoliang Peng, Xiaoqian Zhu, Chengkun Wu, Xin Liu, Qian Chen, Weiliang Zhu, Jinan Wang, Huaiyu Yang
2015 C conf
BWTCP: A Parallel Method for Constructing BWT in Large Collection of Genomic Reads.
ISC
Heng Wang, Shaoliang Peng, Yutong Lu, Chengkun Wu, Jiajun Wen, Jie Liu, Xiaoqian Zhu
2015 C conf
Large-Scale Neo-Heterogeneous Programming and Optimization of SNP Detection on Tianhe-2.
ISC
Yingbo Cui, Xiangke Liao, Shaoliang Peng, Yutong Lu, Canqun Yang, Bingqiang Wang, Chengkun Wu
2015 J jnl
Neo-hetergeneous Programming and Parallelized Optimization of a Human Genome Re-sequencing Analysis Software Pipeline on TH-2 Supercomputer.
Supercomput. Front. Innov.
Xiangke Liao, Shaoliang Peng, Yutong Lu, Yingbo Cui, Chengkun Wu, Heng Wang, Jiajun Wen
2015 J jnl
SupraBiology 2014: Promoting UK-China collaboration on Systems Biology and High Performance Computing.
Quant. Biol.
Ettore Murabito, Riccardo Colombo, Chengkun Wu, Malkhey Verma, Samrina Rehman, Jacky L. Snoep, Shaoliang Peng, Naiyang Guan, Xiangke Liao, Hans V. Westerhoff
2015 B conf
The Challenge of Scaling Genome Big Data Analysis Software on TH-2 Supercomputer.
CCGRID
Shaoliang Peng, Xiangke Liao, Canqun Yang, Yutong Lu, Jie Liu, Yingbo Cui, Heng Wang, Chengkun Wu, Bingqiang Wang
2015 B conf
mAMBER: Accelerating Explicit Solvent Molecular Dynamic with Intel Xeon Phi Many-Integrated Core Coprocessors.
CCGRID
Xin Liu, Shaoliang Peng, Canqun Yang, Chengkun Wu, Haiqiang Wang, Qian Cheng, Weiliang Zhu, Jinan Wang
2014 J jnl
Meeting report on YBPW 2014 (the 3rd Young Bioinformatics PIs Workshop).
Quant. Biol.
Mengyi Sun, Bingyu Yan, Chengkun Wu, Xiaole Shirley Liu
2013 J jnl
PathNER: a tool for systematic identification of biological pathway mentions in the literature.
BMC Syst. Biol.
Chengkun Wu, Jean-Marc Schwartz, Goran Nenadic
2011 B conf
A Parallel Fusion Method for Heterogeneous Multi-sensor Transportation Data.
MDAI
Yingjie Xia, Chengkun Wu, Qing-Jie Kong, Zhenyu Shan, Li Kuang
2009 — conf
A Hybrid Parallel Signature Matching Model for Network Security Applications Using SIMD GPU.
APPT
Chengkun Wu, Jianping Yin, Zhiping Cai, En Zhu, Jieren Cheng
2009 — conf
An Efficient Pre-filtering Mechanism for Parallel Intrusion Detection Based on Many-Core GPU.
FGIT-SecTech
Chengkun Wu, Jianping Yin, Zhiping Cai, En Zhu, Jieren Cheng
2009 — conf
DDoS Attack Detection Method Based on Linear Prediction Model.
ICIC (1)
Jieren Cheng, Jianping Yin, Chengkun Wu, Boyun Zhang, Yun Liu
2009 — conf
DDoS Attack Detection Using IP Address Feature Interaction.
INCoS
Jieren Cheng, Jianping Yin, Yun Liu, Zhiping Cai, Chengkun Wu
2009 — conf
Detecting Distributed Denial of Service Attack Based on Multi-feature Fusion.
FGIT-SecTech
Jieren Cheng, Jianping Yin, Yun Liu, Zhiping Cai, Chengkun Wu