Solving the 3-SAT Problem Based on DNA Computing. - Wenbin Liu; Lin Gao 006; Xiangrong Liu; Shudong Wang; Jin Xu (J. Chem. Inf. Comput. Sci., 2003)

DNA Sequence Design Based on Template Strategy. - Wenbin Liu; Shudong Wang; Lin Gao 006; Fengyue Zhang; Jin Xu (J. Chem. Inf. Comput. Sci., 2003)

A DNA Based Evolutionary Algorithm for the Minimal Set Cover Problem. - Wenbin Liu; Xiangou Zhu; Guandong Xu; Qiang Zhang 008; Lin Gao 006 (ICIC (2), 2005)

Self-Assembly Based Models and Computation Algorithms for DNA. - Lin Gao 006; Wenbin Liu; Weifeng Li; David K. Y. Chiu (Int. J. Unconv. Comput., 2006)

The Hamiltonian Cycle Problem Based on DNA Computing. - Wenbin Liu; Xiangou Zhu; Lin Gao 006 (Int. J. Unconv. Comput., 2007)

MOHCS: Towards Mining Overlapping Highly Connected Subgraphs - Xiahong Lin; Lin Gao 006; Kefei Chen; David K. Y. Chiu (CoRR, 2008)

Evaluation of subgraph searching algorithms detecting network motif in biological networks. - Jialu Hu; Lin Gao 006; Guimin Qin (Frontiers Comput. Sci. China, 2009)

Clustering Algorithms for Detecting Functional Modules in protein Interaction Networks. - Lin Gao 006; Peng-Gang Sun; Jia Song (J. Bioinform. Comput. Biol., 2009)

Identification of core-attachment complexes based on maximal frequent patterns in protein-protein interaction networks. - Liang Yu 002; Lin Gao 006; Chuiliang Kong (BIBM Workshops, 2010)

A centrality measure based on spectral optimization of modularity density. - Lidong Fu; Lin Gao 006; Xiaoke Ma 001 (Sci. China Inf. Sci., 2010)

A hybrid clustering algorithm for identifying modules in Protein - Protein Interaction networks. - Liang Yu 002; Lin Gao 006; Peng-Gang Sun (Int. J. Data Min. Bioinform., 2010)

Quantitative function for community structure detection. - Liang Yu 002; Lin Gao 006; Danyang Wang; Shaofeng Fu (Int. J. Data Min. Model. Manag., 2010)

Spectral clustering for detecting protein complexes in protein-protein interaction (PPI) networks. - Guimin Qin; Lin Gao 006 (Math. Comput. Model., 2010)

Global Network Alignment Based on Multiple Hub Seeds. - Bingbo Wang; Lin Gao 006 (BIBM, 2011)

A degree-distribution based hierarchical agglomerative clustering algorithm for protein complexes identification. - Liang Yu 002; Lin Gao 006; Kui Li; Yi Zhao; David K. Y. Chiu (Comput. Biol. Chem., 2011)

Identification of conserved protein complexes by module alignment. - Peng-Gang Sun; Lin Gao 006; Jia Song (Int. J. Data Min. Bioinform., 2011)

ppiPre - an R package for predicting protein-protein interactions. - Yue Deng 006; Lin Gao 006 (ISB, 2012)

Discovering protein complexes in protein interaction networks via exploring the weak ties effect. - Xiaoke Ma 001; Lin Gao 006 (BMC Syst. Biol., 2012)

An algorithm for network motif discovery in biological networks. - Guimin Qin; Lin Gao 006 (Int. J. Data Min. Bioinform., 2012)

Predicting protein complexes in protein interaction networks using a core-attachment algorithm based on graph communicability. - Xiaoke Ma 001; Lin Gao 006 (Inf. Sci., 2012)

ppiPre: predicting protein-protein interactions by combining heterogeneous features. - Yue Deng 006; Lin Gao 006; Bingbo Wang (BMC Syst. Biol., 2013)

Maximizing modularity intensity for community partition and evolution. - Peng-Gang Sun; Lin Gao 006; Yang Yang (Inf. Sci., 2013)

Abstracting minimal security-relevant behaviors for malware analysis. - Ying Cao 003; Qiguang Miao; Jiachen Liu; Lin Gao 006 (J. Comput. Virol. Hacking Tech., 2013)

Identifying overlapping mutated driver pathways by constructing gene networks in cancer. - Hao Wu 062; Lin Gao 006; Feng Li 033; Fei Song; Xiaofei Yang 003; Nikola K. Kasabov (BMC Bioinform., 2015)

Identifying module biomarker in type 2 diabetes mellitus by discriminative area of functional activity. - Xindong Zhang; Lin Gao 006; Zhi-Ping Liu; Luonan Chen (BMC Bioinform., 2015)

Erratum to: ppiPre: predicting protein-protein interactions by combining heterogeneous features. - Yue Deng 006; Lin Gao 006; Bingbo Wang (BMC Syst. Biol., 2015)

The extraction of drug-disease correlations based on module distance in incomplete human interactome. - Liang Yu 002; Bingbo Wang; Xiaoke Ma 001; Lin Gao 006 (BMC Syst. Biol., 2016)

Integrating phenotypic features and tissue-specific information to prioritize disease genes. - Yue Deng 006; Lin Gao 006; Xingli Guo; Bingbo Wang (Sci. China Inf. Sci., 2016)

Exploring triad-rich substructures by graph-theoretic characterizations in complex networks. - Songwei Jia; Lin Gao 006; Yong Gao 001; James Nastos; Xiao Wen; Xindong Zhang; Haiyang Wang (CoRR, 2016)

Systematic tracking of coordinated differential network motifs identifies novel disease-related genes by integrating multiple data. - Kai Shi 004; Lin Gao 006; Bingbo Wang (Neurocomputing, 2016)

Network-Based Method for Inferring Cancer Progression at the Pathway Level from Cross-Sectional Mutation Data. - Hao Wu 062; Lin Gao 006; Nikola K. Kasabov (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

Drug repositioning based on triangularly balanced structure for tissue-specific diseases in incomplete interactome. - Liang Yu 002; Jin Zhao; Lin Gao 006 (Artif. Intell. Medicine, 2017)

Predicting potential treatments for complex diseases based on miRNA and tissue specificity. - Liang Yu 002; Jin Zhao; Lin Gao 006 (CoRR, 2017)

Prediction of Novel Drugs for Hepatocellular Carcinoma Based on Multi-Source Random Walk. - Liang Yu 002; Ruidan Su; Bingbo Wang; Long Zhang; Yapeng Zou; Jing Zhang; Lin Gao 006 (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Inferring Dysregulated Pathways of Driving Cancer Subtypes Through Multi-omics Integration. - Kai Shi 004; Lin Gao 006; Bingbo Wang (ISBRA, 2018)

Viewing the Meso-Scale Structures in Protein-Protein Interaction Networks Using 2-Clubs. - Songwei Jia; Lin Gao 006; Yong Gao 001; James Nastos; Xiao Wen; Xiaotai Huang; Haiyang Wang (IEEE Access, 2018)

lncSLdb: a resource for long non-coding RNA subcellular localization. - Xiao Wen; Lin Gao 006; Xingli Guo; Xing Li; Xiaotai Huang; Ying Wang; Haifu Xu; Ruijie He; Chenglong Jia; Feixiang Liang (Database J. Biol. Databases Curation, 2018)

Feature related multi-view nonnegative matrix factorization for identifying conserved functional modules in multiple biological networks. - Peizhuo Wang; Lin Gao 006; Yuxuan Hu 004; Feng Li 033 (BMC Bioinform., 2018)

Extracting Stage-Specific and Dynamic Modules Through Analyzing Multiple Networks Associated with Cancer Progression. - Xiaoke Ma 001; Wanxin Tang; Peizhuo Wang; Xingli Guo; Lin Gao 006 (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

miES: predicting the essentiality of miRNAs with machine learning and sequence features. - Fei Song; Chunmei Cui; Lin Gao 006; Qinghua Cui (Bioinform., 2019)

Human Pathway-Based Disease Network. - Liang Yu 002; Lin Gao 006 (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Cluster correlation based method for lncRNA-disease association prediction. - Qianqian Yuan; Xingli Guo; Yang Ren; Xiao Wen; Lin Gao 006 (BMC Bioinform., 2020)

A Node Embedding Framework for Integration of Similarity-based Drug Combination Prediction. - Liang Yu 002; Mingfei Xia; Lin Gao 006 (CoRR, 2020)

Detection of Driver Modules with Rarely Mutated Genes in Cancers. - Feng Li 033; Lin Gao 006; Bingbo Wang (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

C3: connect separate connected components to form a succinct disease module. - Bingbo Wang; Jie Hu; Yajun Wang; Chenxing Zhang; Yuanjun Zhou; Liang Yu 002; Xingli Guo; Lin Gao 006; Yunru Chen (BMC Bioinform., 2020)

The peripheral and core regions of virus-host network of COVID-19. - Bingbo Wang; Xianan Dong; Jie Hu; Xiujuan Ma; Chao Han; Yajun Wang; Lin Gao 006 (Briefings Bioinform., 2021)

Improving Single-Cell RNA-seq Clustering by Integrating Pathways. - Chenxing Zhang; Lin Gao 006; Bingbo Wang; Yong Gao 001 (Briefings Bioinform., 2021)

CCIP: predicting CTCF-mediated chromatin loops with transitivity. - Weibing Wang; Lin Gao 006; Yusen Ye; Yong Gao 001 (Bioinform., 2021)

CeNet Omnibus: an R/Shiny application to the construction and analysis of competing endogenous RNA network. - Xiao Wen; Lin Gao 006; Tuo Song; Chaoqun Jiang (BMC Bioinform., 2021)

Prediction of drug-target interactions based on multi-layer network representation learning. - Yifan Shang; Lin Gao 006; Quan Zou 001; Liang Yu 002 (Neurocomputing, 2021)

Evaluation and comparison of multi-omics data integration methods for cancer subtyping. - Ran Duan; Lin Gao 006; Yong Gao 001; Yuxuan Hu 004; Han Xu; Mingfeng Huang; Kuo Song; Hongda Wang; Yongqiang Dong; Chaoqun Jiang; Chenxing Zhang; Songwei Jia (PLoS Comput. Biol., 2021)

Predicting therapeutic drugs for hepatocellular carcinoma based on tissue-specific pathways. - Liang Yu 002; Meng Wang; Yang Yang; Fengdan Xu; Xu Zhang; Fei Xie; Lin Gao 006; Xiangzhi Li (PLoS Comput. Biol., 2021)

Predicting the functional effects of human non-coding variants based on stacking ensemble learning. - Zepeng Liu; Xiao-Tai Huang; Kei Hang Katie Chan; Lin Gao 006 (BIBM, 2022)

IMRDriver: coding and non-coding cancer driver genes identification based on network propagation. - Song Wang; Xiao-Tai Huang; Kei Hang Katie Chan; Lin Gao 006 (BIBM, 2022)

Reconstruction of human protein-coding gene functional association network based on machine learning. - Xiaotai Huang; Songwei Jia; Lin Gao 006; Jing Wu (Briefings Bioinform., 2022)

MiRNA-disease association prediction based on meta-paths. - Liang Yu 002; Yujia Zheng; Lin Gao 006 (Briefings Bioinform., 2022)

Research progress of miRNA-disease association prediction and comparison of related algorithms. - Liang Yu 002; Yujia Zheng; Bingyi Ju; Chunyan Ao; Lin Gao 006 (Briefings Bioinform., 2022)

Multidrug representation learning based on pretraining model and molecular graph for drug interaction and combination prediction. - Shujie Ren; Liang Yu 002; Lin Gao 006 (Bioinform., 2022)

Cancer classification based on multiple dimensions: SNV patterns. - Bo Li; Liang Yu 002; Lin Gao 006 (Comput. Biol. Medicine, 2022)

Conserved Control Path in Multilayer Networks. - Bingbo Wang; Xiujuan Ma; Cunchi Wang; Mingjie Zhang; Qianhua Gong; Lin Gao 006 (Entropy, 2022)

Application of Multi-Dimensional SNV Features in Supervised Learning. - Liang Yu 002; Lin Gao 006; Bo Li; Hongxia Hao; Lu Chen (BIBM, 2023)

Gene Expression Profile Prediction under Drug Action Based on Generative Adversarial Networks. - Liang Yu 002; Huan Zhu; Da Dong; Lin Gao 006 (BIBM, 2023)

SpriteHyper2vec: A SCSPRITE Data Completion Method Based on Hypergraph Random Walk. - Yamin Liu; Yusen Ye; Lin Gao 006 (CCIS, 2023)

HiSV: A control-free method for structural variation detection from Hi-C data. - Junping Li; Lin Gao 006; Yusen Ye (PLoS Comput. Biol., 2023)

Potent antibiotic design via guided search from antibacterial activity evaluations. - Lu Chen; Liang Yu 002; Lin Gao 006 (Bioinform., 2023)

Identification of a novel gene signature for the prognosis of sepsis. - Kai Yang; Lin Gao 006; Hongxia Hao; Liang Yu 002 (Comput. Biol. Medicine, 2023)

GOLF-Net: Global and local association fusion network for COVID-19 lung infection segmentation. - Xinyu Xu; Lin Gao 006; Liang Yu 002 (Comput. Biol. Medicine, 2023)

CellFeature: Cell and Feature Co-Embedding from Single-Cell Multi-Omics with Heterogeneous Graph Model. - Enling Li; Lin Gao 006; Yusen Ye (BIBM, 2024)

Exploring Hierarchical Structures of Cell Types in scRNA-seq Data. - Haojie Zhai; Yusen Ye; Yuxuan Hu 004; Lanying Wang; Lin Gao 006 (ISBRA (2), 2024)

DeepGRNCS: deep learning-based framework for jointly inferring gene regulatory networks across cell subpopulations. - Yahui Lei; Xiao-Tai Huang; Xingli Guo; Kei Hang Katie Chan; Lin Gao 006 (Briefings Bioinform., 2024)

Statistical modeling and significance estimation of multi-way chromatin contacts with HyperloopFinder. - Weibing Wang; Yusen Ye; Lin Gao 006 (Briefings Bioinform., 2024)

Identifying G-Protein Coupled Receptors Using Mixed-Feature Extraction Methods and Machine Learning Methods. - Chunyan Ao; Lin Gao 006; Liang Yu 002 (IEEE Access, 2025)