Shan He

Publication Activity (10 Years)

Years Active: 2005-2024
Publications (10 Years): 35

Top Topics

Active Learning

Comparative Study

Topology Preserving

Hyperspectral Imagery

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Xiang Liu, Yan Wang, Shan Liu, Zhicheng Ji, Shan He
MIFuGP: Boolean network inference from multivariate time series using fuzzy genetic programming. Inf. Sci. 680 (2024)
Rui He, Shengcai Liu, Jiahao Wu, Shan He, Ke Tang
Multi-Domain Learning From Insufficient Annotations. CoRR (2023)
Rui He, Zeyu Dai, Shan He, Ke Tang
Perturbation-Based Two-Stage Multi-Domain Active Learning. CoRR (2023)
Yang Yue, Yongxuan Liu, Luoying Hao, Huangshu Lei, Shan He
Improving therapeutic synergy score predictions with adverse effects using multi-task heterogeneous network learning. Briefings Bioinform. 24 (1) (2023)
Rui He, Shengcai Liu, Shan He, Ke Tang
Multi-Domain Active Learning: Literature Review and Comparative Study. IEEE Trans. Emerg. Top. Comput. Intell. 7 (3) (2023)
Han Zhang, Zexuan Zhu, Hui Li, Shan He
Network Biomarker Detection From Gene Co-Expression Network Using Gaussian Mixture Model Clustering. IEEE ACM Trans. Comput. Biol. Bioinform. 20 (6) (2023)
Rui He, Zeyu Dai, Shan He, Ke Tang
Perturbation-Based Two-Stage Multi-Domain Active Learning. CIKM (2023)
Rui He, Shengcai Liu, Jiahao Wu, Shan He, Ke Tang
Multi-Domain Learning from Insufficient Annotations. ECAI (2023)
Xiang Liu, Ning Shi, Yan Wang, Zhicheng Ji, Shan He
Data-Driven Boolean Network Inference Using a Genetic Algorithm With Marker-Based Encoding. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (3) (2022)
Shaohui Xie, Xiaotian He, Shan He, Zexuan Zhu
CURC: a CUDA-based reference-free read compressor. Bioinform. 38 (12) (2022)
Chengbin Hou, Han Zhang, Shan He, Ke Tang
GloDyNE: Global Topology Preserving Dynamic Network Embedding (Extended Abstract). ICDE (2022)
Chengbin Hou, Han Zhang, Shan He, Ke Tang
GloDyNE: Global Topology Preserving Dynamic Network Embedding. IEEE Trans. Knowl. Data Eng. 34 (10) (2022)
Gourab Ghosh Roy, Nicholas Geard, Karin Verspoor, Shan He
MPVNN: Mutated Pathway Visible Neural Network architecture for interpretable prediction of cancer-specific survival risk. Bioinform. 38 (22) (2022)
Xiang Liu, Yan Wang, Ning Shi, Zhicheng Ji, Shan He
GAPORE: Boolean network inference using a genetic algorithm with novel polynomial representation and encoding scheme. Knowl. Based Syst. 228 (2021)
Rui He, Shan He, Ke Tang
Multi-Domain Active Learning: A Comparative Study. CoRR (2021)
Yang Yue, Shan He
DTI-HeNE: a novel method for drug-target interaction prediction based on heterogeneous network embedding. BMC Bioinform. 22 (1) (2021)
Dong Li, Zhisong Pan, Guyu Hu, Graham Anderson, Shan He
Active Module Identification From Multilayer Weighted Gene Co-Expression Networks: A Continuous Optimization Approach. IEEE ACM Trans. Comput. Biol. Bioinform. 18 (6) (2021)
Chengbin Hou, Guoji Fu, Peng Yang, Shan He, Ke Tang
Robust Dynamic Network Embedding via Ensembles. CoRR (2021)
Han Zhang, Chengbin Hou, David W. McDonald, Shan He
A Network Embedding Based Approach to Drug-Target Interaction Prediction Using Additional Implicit Networks. ICANN (1) (2021)
Weiqi Chen, Zexuan Zhu, Shan He
MUMI: Multitask Module Identification for Biological Networks. IEEE Trans. Evol. Comput. 24 (4) (2020)
Chengbin Hou, Shan He, Ke Tang
RoSANE: Robust and scalable attributed network embedding for sparse networks. Neurocomputing 409 (2020)
Ning Shi, Zexuan Zhu, Ke Tang, David Parker, Shan He
ATEN: And/Or tree ensemble for inferring accurate Boolean network topology and dynamics. Bioinform. 36 (2) (2020)
Chengbin Hou, Han Zhang, Shan He, Ke Tang
GloDyNE: Global Topology Preserving Dynamic Network Embedding. CoRR (2020)
David W. McDonald, Shan He
HEAT: Hyperbolic Embedding of Attributed Networks. IDEAL (1) (2020)
Jing Liu, Yaxiong Chi, Zongdong Liu, Shan He
Ensemble multi-objective evolutionary algorithm for gene regulatory network reconstruction based on fuzzy cognitive maps. CAAI Trans. Intell. Technol. 4 (1) (2019)
Chengbin Hou, Han Zhang, Ke Tang, Shan He
DynWalks: Global Topology and Recent Changes Awareness Dynamic Network Embedding. CoRR (2019)
David W. McDonald, Shan He
HEAT: Hyperbolic Embedding of Attributed Networks. CoRR (2019)
Rui Guo, Yan-Ran Li, Shan He, Le Ou-Yang, Yiwen Sun, Zexuan Zhu
RepLong: de novo repeat identification using long read sequencing data. Bioinform. 34 (7) (2018)
Chengbin Hou, Shan He, Ke Tang
Attributed Network Embedding for Incomplete Structure Information. CoRR (2018)
Dong Li, Zhisong Pan, Guyu Hu, Zexuan Zhu, Shan He
Active module identification in intracellular networks using a memetic algorithm with a new binary decoding scheme. BMC Genom. 18 (S2) (2017)
Handing Wang, Shan He, Xin Yao
Nadir point estimation for many-objective optimization problems based on emphasized critical regions. Soft Comput. 21 (9) (2017)
Weiqi Chen, Jing Liu, Shan He
Prior knowledge guided active modules identification: an integrated multi-objective approach. BMC Syst. Biol. 11 (S-2) (2017)
Jiarui Zhou, Zhen Ji, Zexuan Zhu, Shan He
Metabolomics biomarker discovery using multimodal memetic algorithm and multivariate mutual information based feature selection. CEC (2016)
Shan He, Guanbo Jia, Zexuan Zhu, Dan A. Tennant, Qiang Huang, Ke Tang, Jing Liu, Mirco Musolesi, John K. Heath, Xin Yao
Cooperative Co-Evolutionary Module Identification With Application to Cancer Disease Module Discovery. IEEE Trans. Evol. Comput. 20 (6) (2016)
Zexuan Zhu, Jun Xiao, Shan He, Zhen Ji, Yiwen Sun
A multi-objective memetic algorithm based on locality-sensitive hashing for one-to-many-to-one dynamic pickup-and-delivery problem. Inf. Sci. 329 (2016)
James Bradbury, Grégory Genta-Jouve, James William Allwood, Warwick B. Dunn, Royston Goodacre, Joshua D. Knowles, Shan He, Mark R. Viant
MUSCLE: automated multi-objective evolutionary optimization of targeted LC-MS/MS analysis. Bioinform. 31 (6) (2015)
Shan He, Huanhuan Chen, Zexuan Zhu, Douglas G. Ward, Helen J. Cooper, Mark R. Viant, John K. Heath, Xin Yao
Robust twin boosting for feature selection from high-dimensional omics data with label noise. Inf. Sci. 291 (2015)
Yongpeng Zhang, Linsen Li, Yanli Yang, Xiao Yang, Shan He, Zexuan Zhu
Light-weight reference-based compression of FASTQ data. BMC Bioinform. 16 (2015)
Guanbo Jia, Shan He, Zexuan Zhu, Jing Liu, Ke Tang
A Multimodal Optimization and Surprise Based Consensus Community Detection Algorithm. GECCO (Companion) (2015)
Zexuan Zhu, Fangxiao Wang, Shan He, Yiwen Sun
Global path planning of mobile robots using a memetic algorithm. Int. J. Syst. Sci. 46 (11) (2015)
Zexuan Zhu, Sen Jia, Shan He, Yiwen Sun, Zhen Ji, LinLin Shen
Three-dimensional Gabor feature extraction for hyperspectral imagery classification using a memetic framework. Inf. Sci. 298 (2015)
Zexuan Zhu, Yongpeng Zhang, Zhen Ji, Shan He, Xiao Yang
High-throughput DNA sequence data compression. Briefings Bioinform. 16 (1) (2015)
Jiarui Zhou, Zhen Ji, Zexuan Zhu, Shan He
Compression of next-generation sequencing quality scores using memetic algorithm. BMC Bioinform. 15 (S-15) (2014)
Jiarui Zhou, Ralf J. M. Weber, James William Allwood, Robert Mistrik, Zexuan Zhu, Zhen Ji, Siping Chen, Warwick B. Dunn, Shan He, Mark R. Viant
mass spectral fragmentation libraries. Bioinform. 30 (4) (2014)
Mengshi Li, Tianyao Ji, Peter Wu, Shan He, Qing-Hua Wu
Protein folding estimation using Paired-Bacteria Optimizer. IEEE Congress on Evolutionary Computation (2014)
Lin Li, Xin Yao, Rustam Stolkin, Maoguo Gong, Shan He
An Evolutionary Multiobjective Approach to Sparse Reconstruction. IEEE Trans. Evol. Comput. 18 (6) (2014)
Dan Chen, Dongchuan Lu, Mingwei Tian, Shan He, Shuaiting Wang, Jian Tian, Chang Cai, Xiaoli Li
Towards energy-efficient parallel analysis of neural signals. Clust. Comput. 16 (1) (2013)
Yiwen Sun, Zexuan Zhu, Shan He, Zhen Ji
A coevolving memetic algorithm for simultaneous partitional clustering and feature weighting. Memetic Computing (2013)
Junshan Yang, Zexuan Zhu, Shan He, Zhen Ji
Minimal-redundancy-maximal-relevance feature selection using different relevance measures for omics data classification. CIBCB (2013)
Thomas White, Shan He
An Empirical Comparison of Several Recent Multi-objective Evolutionary Algorithms. AIAI (1) (2012)
Wenmin Liu, Zhen Ji, Shan He, Zexuan Zhu
Survival analysis of gene expression data using PSO based radial basis function networks. IEEE Congress on Evolutionary Computation (2012)
Guanbo Jia, Zixing Cai, Mirco Musolesi, Yong Wang, Dan A. Tennant, Ralf J. M. Weber, John K. Heath, Shan He
Community Detection in Social and Biological Networks Using Differential Evolution. LION (2012)
Qiang Huang, Thomas White, Guanbo Jia, Mirco Musolesi, Nil Turan, Ke Tang, Shan He, John K. Heath, Xin Yao
Community Detection Using Cooperative Co-evolutionary Differential Evolution. PPSN (2) (2012)
Ling Lin, Zhen Ji, Shan He, Zexuan Zhu
A crown jewel defense strategy based particle swarm optimization. IEEE Congress on Evolutionary Computation (2012)
Zexuan Zhu, Wenmin Liu, Shan He, Zhen Ji
Memetic clustering based on particle swarm optimizer and K-means. IEEE Congress on Evolutionary Computation (2012)
Zexuan Zhu, LinLin Shen, Yiwen Sun, Shan He, Zhen Ji
Memetic Three-Dimensional Gabor Feature Extraction for Hyperspectral Imagery Classification. ICSI (1) (2012)
Zhen Ji, Tao Tian, Shan He, Zexuan Zhu
A memory binary particle swarm optimization. IEEE Congress on Evolutionary Computation (2012)
Ralf J. M. Weber, Eva Li, Jonathan Bruty, Shan He, Mark R. Viant
MaConDa: a publicly accessible mass spectrometry contaminants database. Bioinform. 28 (21) (2012)
Shan He, Huanhuan Chen, Xiaoli Li, Xin Yao
Profiling of Mass Spectrometry Data for Ovarian Cancer Detection Using Negative Correlation Learning. ICANN (2) (2009)
Shan He, Q. Henry Wu, Jon R. Saunders
Group Search Optimizer: An Optimization Algorithm Inspired by Animal Searching Behavior. IEEE Trans. Evol. Comput. 13 (5) (2009)
Shan He, Darko Kirovski
Mixing bounded Laplace and Gaussian fingerprints. ACSCC (2008)
Shan He, Xiaoli Li
Application of a group search optimization based Artificial Neural Network to machine condition monitoring. ETFA (2008)
Shan He, Xiaoli Li
Profiling of High-Throughput Mass Spectrometry Data for Ovarian Cancer Detection. IDEAL (2007)
Shan He, Q. H. Wu, Jon R. Saunders
A Group Search Optimizer for Neural Network Training. ICCSA (3) (2006)
Wenhu Tang, Shan He, Emmanuel Prempain, Q. H. Wu, J. Fitch
A particle swarm optimiser with passive congregation approach to thermal modelling for power transformers. Congress on Evolutionary Computation (2005)