A particle swarm optimiser with passive congregation approach to thermal modelling for power transformers. - Wenhu Tang; Shan He 001; Emmanuel Prempain; Q. H. Wu; J. Fitch (Congress on Evolutionary Computation, 2005)

A Group Search Optimizer for Neural Network Training. - Shan He 001; Q. H. Wu; Jon R. Saunders (ICCSA (3), 2006)

Profiling of High-Throughput Mass Spectrometry Data for Ovarian Cancer Detection. - Shan He 001; Xiaoli Li 002 (IDEAL, 2007)

Mixing bounded Laplace and Gaussian fingerprints. - Shan He 001; Darko Kirovski (ACSCC, 2008)

Application of a group search optimization based Artificial Neural Network to machine condition monitoring. - Shan He 001; Xiaoli Li 002 (ETFA, 2008)

Profiling of Mass Spectrometry Data for Ovarian Cancer Detection Using Negative Correlation Learning. - Shan He 001; Huanhuan Chen; Xiaoli Li 002; Xin Yao 001 (ICANN (2), 2009)

Group Search Optimizer: An Optimization Algorithm Inspired by Animal Searching Behavior. - Shan He 001; Q. Henry Wu; Jon R. Saunders (IEEE Trans. Evol. Comput., 2009)

A memory binary particle swarm optimization. - Zhen Ji; Tao Tian; Shan He 001; Zexuan Zhu (IEEE Congress on Evolutionary Computation, 2012)

A crown jewel defense strategy based particle swarm optimization. - Ling Lin; Zhen Ji; Shan He 001; Zexuan Zhu (IEEE Congress on Evolutionary Computation, 2012)

Survival analysis of gene expression data using PSO based radial basis function networks. - Wenmin Liu; Zhen Ji; Shan He 001; Zexuan Zhu (IEEE Congress on Evolutionary Computation, 2012)

Memetic clustering based on particle swarm optimizer and K-means. - Zexuan Zhu; Wenmin Liu; Shan He 001; Zhen Ji (IEEE Congress on Evolutionary Computation, 2012)

An Empirical Comparison of Several Recent Multi-objective Evolutionary Algorithms. - Thomas White; Shan He 001 (AIAI (1), 2012)

Community Detection in Social and Biological Networks Using Differential Evolution. - Guanbo Jia; Zixing Cai; Mirco Musolesi; Yong Wang 002; Dan A. Tennant; Ralf J. M. Weber; John K. Heath; Shan He 001 (LION, 2012)

Community Detection Using Cooperative Co-evolutionary Differential Evolution. - Qiang Huang; Thomas White; Guanbo Jia; Mirco Musolesi; Nil Turan; Ke Tang 001; Shan He 001; John K. Heath; Xin Yao 001 (PPSN (2), 2012)

Memetic Three-Dimensional Gabor Feature Extraction for Hyperspectral Imagery Classification. - Zexuan Zhu; LinLin Shen; Yiwen Sun; Shan He 001; Zhen Ji (ICSI (1), 2012)

MaConDa: a publicly accessible mass spectrometry contaminants database. - Ralf J. M. Weber; Eva Li; Jonathan Bruty; Shan He 001; Mark R. Viant (Bioinform., 2012)

Minimal-redundancy-maximal-relevance feature selection using different relevance measures for omics data classification. - Junshan Yang; Zexuan Zhu; Shan He 001; Zhen Ji (CIBCB, 2013)

A coevolving memetic algorithm for simultaneous partitional clustering and feature weighting. - Yiwen Sun; Zexuan Zhu; Shan He 001; Zhen Ji (Memetic Computing, 2013)

Towards energy-efficient parallel analysis of neural signals. - Dan Chen 001; Dongchuan Lu; Mingwei Tian; Shan He 001; Shuaiting Wang; Jian Tian; Chang Cai; Xiaoli Li 002 (Clust. Comput., 2013)

Protein folding estimation using Paired-Bacteria Optimizer. - Mengshi Li; Tianyao Ji; Peter Wu; Shan He 001; Qing-Hua Wu 003 (IEEE Congress on Evolutionary Computation, 2014)

HAMMER: automated operation of mass frontier to construct in silico mass spectral fragmentation libraries. - Jiarui Zhou; Ralf J. M. Weber; James William Allwood; Robert Mistrik; Zexuan Zhu; Zhen Ji; Siping Chen; Warwick B. Dunn; Shan He 001; Mark R. Viant (Bioinform., 2014)

Compression of next-generation sequencing quality scores using memetic algorithm. - Jiarui Zhou; Zhen Ji; Zexuan Zhu; Shan He 001 (BMC Bioinform., 2014)

An Evolutionary Multiobjective Approach to Sparse Reconstruction. - Lin Li 016; Xin Yao 001; Rustam Stolkin; Maoguo Gong; Shan He 001 (IEEE Trans. Evol. Comput., 2014)

A Multimodal Optimization and Surprise Based Consensus Community Detection Algorithm. - Guanbo Jia; Shan He 001; Zexuan Zhu; Jing Liu 006; Ke Tang 001 (GECCO (Companion), 2015)

High-throughput DNA sequence data compression. - Zexuan Zhu; Yongpeng Zhang; Zhen Ji; Shan He 001; Xiao Yang (Briefings Bioinform., 2015)

MUSCLE: automated multi-objective evolutionary optimization of targeted LC-MS/MS analysis. - James Bradbury 001; Grégory Genta-Jouve; James William Allwood; Warwick B. Dunn; Royston Goodacre; Joshua D. Knowles; Shan He 001; Mark R. Viant (Bioinform., 2015)

Light-weight reference-based compression of FASTQ data. - Yongpeng Zhang; Linsen Li; Yanli Yang; Xiao Yang; Shan He 001; Zexuan Zhu (BMC Bioinform., 2015)

A Memetic Optimization Strategy Based on Dimension Reduction in Decision Space. - Handing Wang; Licheng Jiao; Ronghua Shang; Shan He 001; Fang Liu 001 (Evol. Comput., 2015)

Global path planning of mobile robots using a memetic algorithm. - Zexuan Zhu; Fangxiao Wang 001; Shan He 001; Yiwen Sun (Int. J. Syst. Sci., 2015)

Robust twin boosting for feature selection from high-dimensional omics data with label noise. - Shan He 001; Huanhuan Chen; Zexuan Zhu; Douglas G. Ward; Helen J. Cooper; Mark R. Viant; John K. Heath; Xin Yao 001 (Inf. Sci., 2015)

Three-dimensional Gabor feature extraction for hyperspectral imagery classification using a memetic framework. - Zexuan Zhu; Sen Jia 001; Shan He 001; Yiwen Sun; Zhen Ji; LinLin Shen (Inf. Sci., 2015)

Metabolomics biomarker discovery using multimodal memetic algorithm and multivariate mutual information based feature selection. - Jiarui Zhou; Zhen Ji; Zexuan Zhu; Shan He 001 (CEC, 2016)

A multi-objective memetic algorithm based on locality-sensitive hashing for one-to-many-to-one dynamic pickup-and-delivery problem. - Zexuan Zhu; Jun Xiao; Shan He 001; Zhen Ji; Yiwen Sun (Inf. Sci., 2016)

Cooperative Co-Evolutionary Module Identification With Application to Cancer Disease Module Discovery. - Shan He 001; Guanbo Jia; Zexuan Zhu; Dan A. Tennant; Qiang Huang; Ke Tang 001; Jing Liu 006; Mirco Musolesi; John K. Heath; Xin Yao 001 (IEEE Trans. Evol. Comput., 2016)

Active module identification in intracellular networks using a memetic algorithm with a new binary decoding scheme. - Dong Li 002; Zhisong Pan; Guyu Hu; Zexuan Zhu; Shan He 001 (BMC Genom., 2017)

Prior knowledge guided active modules identification: an integrated multi-objective approach. - Weiqi Chen; Jing Liu 006; Shan He 001 (BMC Syst. Biol., 2017)

Nadir point estimation for many-objective optimization problems based on emphasized critical regions. - Handing Wang; Shan He 001; Xin Yao 001 (Soft Comput., 2017)

RepLong: de novo repeat identification using long read sequencing data. - Rui Guo; Yan-Ran Li 001; Shan He 001; Le Ou-Yang; Yiwen Sun; Zexuan Zhu (Bioinform., 2018)

Attributed Network Embedding for Incomplete Structure Information. - Chengbin Hou; Shan He 001; Ke Tang 001 (CoRR, 2018)

Ensemble multi-objective evolutionary algorithm for gene regulatory network reconstruction based on fuzzy cognitive maps. - Jing Liu 006; Yaxiong Chi; Zongdong Liu; Shan He 001 (CAAI Trans. Intell. Technol., 2019)

DynWalks: Global Topology and Recent Changes Awareness Dynamic Network Embedding. - Chengbin Hou; Han Zhang; Ke Tang 001; Shan He 001 (CoRR, 2019)

HEAT: Hyperbolic Embedding of Attributed Networks. - David W. McDonald; Shan He 001 (IDEAL (1), 2020)

ATEN: And/Or tree ensemble for inferring accurate Boolean network topology and dynamics. - Ning Shi; Zexuan Zhu; Ke Tang 001; David Parker 001; Shan He 001 (Bioinform., 2020)

RoSANE: Robust and scalable attributed network embedding for sparse networks. - Chengbin Hou; Shan He 001; Ke Tang 001 (Neurocomputing, 2020)

MUMI: Multitask Module Identification for Biological Networks. - Weiqi Chen; Zexuan Zhu; Shan He 001 (IEEE Trans. Evol. Comput., 2020)

A Network Embedding Based Approach to Drug-Target Interaction Prediction Using Additional Implicit Networks. - Han Zhang; Chengbin Hou; David W. McDonald; Shan He 001 (ICANN (1), 2021)

PoLoBag: Polynomial Lasso Bagging for signed gene regulatory network inference from expression data. - Gourab Ghosh Roy; Nicholas Geard; Karin Verspoor; Shan He 001 (Bioinform., 2021)

DTI-HeNE: a novel method for drug-target interaction prediction based on heterogeneous network embedding. - Yang Yue 008; Shan He 001 (BMC Bioinform., 2021)

Robust Dynamic Network Embedding via Ensembles. - Chengbin Hou; Guoji Fu; Peng Yang 008; Shan He 001; Ke Tang 001 (CoRR, 2021)

Multi-Domain Active Learning: A Comparative Study. - Rui He; Shan He 001; Ke Tang 001 (CoRR, 2021)

GAPORE: Boolean network inference using a genetic algorithm with novel polynomial representation and encoding scheme. - Xiang Liu 019; Yan Wang 049; Ning Shi; Zhicheng Ji; Shan He 001 (Knowl. Based Syst., 2021)

Active Module Identification From Multilayer Weighted Gene Co-Expression Networks: A Continuous Optimization Approach. - Dong Li 002; Zhisong Pan; Guyu Hu; Graham Anderson; Shan He 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

GloDyNE: Global Topology Preserving Dynamic Network Embedding (Extended Abstract). - Chengbin Hou; Han Zhang; Shan He 001; Ke Tang 001 (ICDE, 2022)

CURC: a CUDA-based reference-free read compressor. - Shaohui Xie; Xiaotian He; Shan He 001; Zexuan Zhu (Bioinform., 2022)

Data-Driven Boolean Network Inference Using a Genetic Algorithm With Marker-Based Encoding. - Xiang Liu 019; Ning Shi; Yan Wang 049; Zhicheng Ji; Shan He 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

GloDyNE: Global Topology Preserving Dynamic Network Embedding. - Chengbin Hou; Han Zhang; Shan He 001; Ke Tang 001 (IEEE Trans. Knowl. Data Eng., 2022)

MPVNN: Mutated Pathway Visible Neural Network architecture for interpretable prediction of cancer-specific survival risk. - Gourab Ghosh Roy; Nicholas Geard; Karin Verspoor; Shan He 001 (Bioinform., 2022)

Perturbation-Based Two-Stage Multi-Domain Active Learning. - Rui He; Zeyu Dai 001; Shan He 001; Ke Tang 001 (CIKM, 2023)

Multi-Domain Learning from Insufficient Annotations. - Rui He; Shengcai Liu; Jiahao Wu 004; Shan He 001; Ke Tang 001 (ECAI, 2023)

Network Biomarker Detection From Gene Co-Expression Network Using Gaussian Mixture Model Clustering. - Han Zhang; Zexuan Zhu; Hui Li; Shan He 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Improving therapeutic synergy score predictions with adverse effects using multi-task heterogeneous network learning. - Yang Yue 008; Yongxuan Liu; Luoying Hao; Huangshu Lei; Shan He 001 (Briefings Bioinform., 2023)

Multi-Domain Active Learning: Literature Review and Comparative Study. - Rui He; Shengcai Liu; Shan He 001; Ke Tang 001 (IEEE Trans. Emerg. Top. Comput. Intell., 2023)

MIX-TPI: a flexible prediction framework for TCR-pMHC interactions based on multimodal representations. - Minghao Yang; Zhi-An Huang; Wei Zhou 001; Junkai Ji; Jun Zhang 078; Shan He 001; Zexuan Zhu (Bioinform., 2023)

Dockformer: A transformer-based molecular docking paradigm for large-scale virtual screening. - Zhangfan Yang; Junkai Ji; Shan He 001; Jianqiang Li 001; Tiantian He 001; Ruibin Bai; Zexuan Zhu; Yew Soon Ong (CoRR, 2024)

MIFuGP: Boolean network inference from multivariate time series using fuzzy genetic programming. - Xiang Liu 019; Yan Wang 049; Shan Liu; Zhicheng Ji; Shan He 001 (Inf. Sci., 2024)

MEF-AlloSite: an accurate and robust Multimodel Ensemble Feature selection for the Allosteric Site identification model. - Sadettin Y. Ugurlu; David W. McDonald; Shan He 001 (J. Cheminformatics, 2024)

Cobdock: an accurate and practical machine learning-based consensus blind docking method. - Sadettin Y. Ugurlu; David W. McDonald; Huangshu Lei; Alan M. Jones; Shu Li; Henry H. Y. Tong; Mark S. Butler; Shan He 001 (J. Cheminformatics, 2024)

MDTL-ACP: Anticancer Peptides Prediction Based on Multi-Domain Transfer Learning. - Junhang Cao; Wei Zhou 001; Qiyuan Yu; Junkai Ji; Jun Zhang 078; Shan He 001; Zexuan Zhu (IEEE J. Biomed. Health Informatics, 2025)

A Survey on Evolutionary Computation-Based Drug Discovery. - Qiyuan Yu; Qiuzhen Lin; Junkai Ji; Wei Zhou 001; Shan He 001; Zexuan Zhu; Kay Chen Tan (IEEE Trans. Evol. Comput., 2025)