在国际著名期刊PNAS、IEEE CYB、IEEE TKDE、Cell Stem Cell、Genome Biology, Bioinformatics、PLoS Computational Biology等发表SCI检索的论文100多篇。

部分发表论文与专著：

[1]  马小科, 崔江涛，王泉 著, 《多层网络图模式挖掘及癌症基因组学应用》，2024 已交稿

[2]  马小科, 刘晓刚 著, 《图数据挖掘理论、算法及应用》，ISBN：978-7-5612-8626-5,  2022-12. 21.4万字

[3]  马小科 编著, 《数据挖掘基础及其应用》， ISBN：9787560658810,  2020-10. 42.4万字

2023年 （*为通信作者）

[1] Yu Wang, Zaiyi Liu,  Xiaoke Ma*.  MNMST: Topology of cell networks leverages identification of spatial domains from spatial transcriptomics data. Genome Biology. accepted. 2024 中科院一区,IF=17.90

[2] Haiyu Wang, Quan Wang, Qiguang Miao,  Xiaoke Ma*.  Joint Learning of Data Recovering and Graph Contrastive Denoising for Incomplete Multi-view Clustering. Information Fusion.  104:102155. 2024  中科院一区, IF=18.40

[3] Wenming Wu, Wensheng Zhang, Maoguo Gong,  Xiaoke Ma*.  Noised Multi-layer Networks Clustering with Graph Denoising and Structure Learning. IEEE Transactions on Knowledge and Data Engineering.  DOI 10.1109/TKDE.2023.3335223 . 2023  CCF A期刊, IF=9.87

[4] Wenming Wu, Maoguo Gong,  Xiaoke Ma*.  Clustering of Multi-layer Networks using Joint Learning Algorithm with Orthogonality and Specificity of Features. IEEE Transactions on Cybernetics.  53(8):4972-4985. 2023  中科院一区, IF=19.12

[5] Dongyuan Li,  Xiaoke Ma*, Maoguo Gong.  Joint Learning of Feature Extraction and Clustering for Large-scale Temporal Networks. IEEE Transactions on Cybernetics. 53(3):1653-1666.. 2023  中科院一区, IF=19.12

[6] Xiaojing Wei, Zhen Yu, Peixia Tang, Hao Sun, Lixin Gong, Lanting Liu, Teng Fang, Yi He, Tingyu Wang, Weiwei Sui, Yan Xu, Gang An, Zhenshu Xu, Xiaoke Ma*, Lugui Qiu*, Mu Hao*.  Multiple myeloma–derived miR‐27b‐3p facilitates tumour progression via promoting tumour cell proliferation and immunosuppressive microenvironment. Clinical and Translational Medicine. 13(1):e1140.. 2023  中科院一区, IF=10.42

[7] Haiyue Wang, Wensheng Zhang,  Xiaoke Ma*.  Contrastive and adversarial regularized multi-level representation learning for incomplete multi-view clustering . Neural Networks. 172:106102. 2024  中科院一区, IF=7.89

[8] Wenming Wu,  Xiaoke Ma*, Quan Wang, Maoguo Gong, Quanxue Gao.  Learning deep representation and discriminative features for clustering of multi-layer networks. Neural Networks. 170:405-416. 2024  中科院一区, IF=7.89

[9] Haiyue Wang, Zaiyi Liu,  Xiaoke Ma*.  Learning consistency and specificity of cells from single-cell multi-omic data. IEEE Journal of  Biomedical and Health Informatics. 28(5):3134-3145. 2024  中科院一区, IF=7.70

[10] Yifei Yang,  Xiaoke Ma*.  Graph Contrastive Learning for Clustering of Multi-layer Networks. IEEE Transactions on Big Data. DOI.10.1109/TBDATA.2023.3343349 . 2023  中科院二区, IF=7.20

[11] Xiaowei Gao, Yan Wang, Weimin Hou, Zaiyi Liu,  Xiaoke Ma*.  Multi-View Clustering for Integration of Gene Expression and Methylation Data With Tensor Decomposition and Self-Representation Learning. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 20(3):2050-2063. 2023  中科院二区, CCF B类期刊， IF=3.89

[12] Wenming Wu, Wensheng Zhang, Weimin Hou,  Xiaoke Ma*.  Multi-view clustering with graph learning for scRNA-seq data. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI.10.1109/TCBB.2023.3298334. 2023  中科院二区, CCF B类期刊， IF=3.89

[13] Wenming Wu,  Xiaoke Ma*.  Network-Based Structural Learning Nonnegative Matrix Factorization Algorithm for Clustering of scRNA-Seq Data. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 20(1):566-574. 2023  中科院二区, CCF B类期刊， IF=3.89  ESI高被引论文

[14] Wentao Jia,  Xiaoke Ma*. Clustering of multi-layer networks with structural relations and conservation of features. Applied Soft Computing. 140:110272. 2023  中科院一区, IF=8.70  

[15] Zhaoyuan Cai, Xianghua Xie, Jingjing Deng, Zengfa Dou, Bo Tong,  Xiaoke Ma*. Image restoration with group sparse representation and low-rank group residual learning. IET Image Processing. 1-20. 2023  中科院三区, IF=2.30

[16] Yun Ai, Xianghua Xie,  Xiaoke Ma*. Graph Contrastive Learning for Tracking Dynamic Communities in Temporal Network. IEEE Transactions on Emerging Topics in Computational Intelligence. 2024  中科院二区, IF=5.90

[17] Yu Wang,  Xiaoke Ma*.MuCST: restoring and integrating heterogeneous morphology images and spatial transcriptomics data with contrastive learning. In revision

[18] Haiyue Wang, Wensheng Zhang, Shiquan Sun,  Xiaoke Ma*.stACN: joint graph denoising and clustering of spatially resoved transcriptomics by exploiting topology of cell networks. In submission

[19] Zhi Wang, Qiang Lin, Yaxiong Ma,  Xiaoke Ma*. Local High-Order Graph Learning for Multi-View Clustering. In revision

[20] Songen Cao, Xiaoyi Lv, Yaxiong Ma,  Xiaoke Ma*. Multi-graph Contrastive Learning for Community Detection in Multi-layer Networks. In revision

[21] Yaxiong Ma,  Xiaoke Ma*. Multi-graph Contrastive Learning for Community Detection in Multi-layer NetworksDynFTTL: dynamic graphs clustering with historical feature transition and temporal learning. In submission

2022年 

[1] Haiyue Wang,   Xiaoke Ma*.  Learning discriminative and structural samples for rare cell types with deep generative model. Briefings in Bioinformatics. 23(5):bbac317. 2022  中科院一区, IF=13.99

[2] Wenming Wu, Wensheng Zhang,  Xiaoke Ma*.  Network-based integrative analysis of single-cell transcriptomic and epigenomic data for cell types. Briefings in Bioinformatics. 1-13. 2022  中科院一区, IF=13.99

[3] Haiyue Wang,  Xiaoke Ma*.  Learning Deep Features and Topological  Structure of Cells for Clustering of scRNA-sequencing data. Briefings in Bioinformatics. DOI. bbac068 2022  中科院一区, IF=13.99

[4] Xiaoke Ma*, Shiyin Tan, Xianghua Xie, Xiaoxiong Zhong, Jingjing Deng.  joint feature extraction and multi-label learning for temporal link prediction. Pattern Recognition. 121:108216. 2022  中科院一区, IF=8.18

[5] Wenming Wu, Tao Yang,  Xiaoke Ma*, Wensheng Zhang, He Li, Jianbin Huang, Yanni Li, Jiangtao Cui. Learning specific and conserved features of multi-layer networks. Information Sciences. 622:930-945. 2022  中科院一区, IF=8.34

[6] Benhui Zhang,  Xiaoke Ma*. Multi-view clustering with constructed bipartite graph in embedding spaces. IKnowledge-Based Systems. 254:109690. 2022  中科院一区, IF=8.18

[7] Haiyue Wang, Wensheng Zhang,  Xiaoke Ma*. Clustering of noised and heterogeneous multi-view data with graph learning and projection decompositions. Knowledge-Based Systems. 255:109736. 2022  中科院一区, IF=8.18

[8]  Xiaoke Ma*, Penggang Sun, Maoguo Gong. An integrative framework of heterogeneous genomic data for cancer dynamic modules based on matrix decomposition. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 19(1):305-316. 2022  中科院二区,CCF B类期刊， IF=3.89

[9]  Xiaoke Ma*, Zhao Wei, Wenming Wu. Layer-specific modules detection in cancer multi-layer networks. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI. 10.1109/TCBB.2022.3176859. 2022  中科院二区,CCF B类期刊， IF=3.89

[10] Wenming Wu,  Xiaoke Ma*. Network-based structural learning nonnegative matrix factorization algorithm for clustering of scRNA-seq data. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI. 10.1109/TCBB.2022.3161131. 2022  中科院二区,CCF B类期刊， IF=3.89  ESI高被引论文

2021年 

[1] Fengyin Li, Xin Zhao, Yali Zhang, Peng Shao, Xiaoke Ma, William J. Paradeeg, Chengyu Liu, Jianmin Wang,  Hai-Hui Xue*. TFH cells depend on Tcf1-intrinsic HDAC activity to suppress CTLA4 and guard B-cell help function. PNAS. 118(2):e2014562118. 2021.  中科院一区，IF=11.21

[2] Dongyuan Li,  Xiaoke Ma*, Maoguo Gong.  Joint Learning of Feature Extraction and Clustering for Large-scale Temporal Networks. IEEE Transactions on Cybernetics. DOI.10.1109/TCYB.2021.3107679. 2021  中科院一区, IF=19.12

[3] Wenming Wu, Zaiyi Liu,  Xiaoke Ma*.  jSRC: a flexible and accurate joint learning algorithm for clustering of single-cell RNA-sequencing data. Briefings in Bioinformatics. 22(1):1-15. 2021  中科院一区, IF=13.99

[4] Benhui Zhang, Maoguo Gong, Jianbin Huang, Xiaoke Ma*. Clustering Heterogeneous Information Network by join Graph Embedding and Nonnegative Matrix Factorization.ACM Transactions on Knowledge Discovery from Data.15(4):73.2021数据挖掘著名期刊

[5] Xiaowei Gao, Xiaoke Ma*, Wensheng Zhang, Jianbin Huang, He Li, Yanni Li, Jiangtao Cui.  Multi-view Clustering with Self-representation and Structural Constraint.  IEEE Transactions on Big Data. DOI. 10.1109/TBDATA.2021.3128906. 2021 数据挖掘著名期刊

[6] Changzhou Ma, Yong Lin, Qiang Lin,  Xiaoke Ma*.  Identification of multi-layer networks community by fusing nonnegative matrix factorization and topological structural information. Knowledge-Based Systems. 213:106666. 2021  中科院一区, IF=8.08

[7] Dongyuan Li, Xiaoxiong Zhong, Zengfa Dou, Maoguo Gong,  Xiaoke Ma*.  Detecting dynamic community by fusing network embedding and nonnegative matrix factorization. Knowledge-Based Systems. 221:106961. 2021  中科院一区, IF=8.08

[8] Zhihao Huang, Zengfa Dou,  Xiaoke Ma*.  Embedding regularized nonnegative matrix factorization for structural
reduction in multi-layer networks. Applied Soft Computing. 221:106961. 2021  中科院一区, IF=6.73

[9] Dongyuan Li, Qiang Lin, Xiaoke Ma*. Identification of dynamic community in temporal network via joint learning graph representation and nonnegative matrix factorization. Neurocomputing. 112: 107781. 2021  中科院二区, IF=4.65

[10] Dongyuan Li, Shuyao Zhang,  Xiaoke Ma*.  Dynamic Module Detection in Temporal Attributed Networks of cancers. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI. 10.1109/TCBB.2021.3069441. 2021  中科院二区, IF=3.89 ESI高被引论文

[12] Zhihao Huang, Yan Wang,  Xiaoke Ma*.  Clustering of Cancer Attributed Networks by dynamically and jointly Factorizing Multi-layer Graphs. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI. 10.1109/TCBB.2021.3090586. 2021  中科院二区, IF=3.89

[13] Xiaowei Gao, Xiaogang Liu, Xiaoke Ma*. Multi-view Clustering for the Integration Analysis of Gene Expression and Methylation Data. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 1835-1840, 2021.  CCF B类会议

[14] Junyao Zhang, Xiaogang Liu, Xiaoke Ma*. Temporal Link Prediction for Cancer Networks using Structural Consistency Regularized Non-negative Matrix Factorization. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 280-284, 2021.  CCF B类会议

[15] Fei Song, Xiaogang Liu, Xiaoke Ma*. Transfer Learning for Gene Ranking across Cancers. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 1886-1891, 2021.  CCF B类会议

2020年

[1] Wenming Wu, Xiaoke Ma*. Joint learning dimension reduction and clustering of single-cell RNA-sequencing data. Bioinformatics. 36(12):3825-3832. 2020  中科院一区, IF=6.96. 生物信息学著名期刊

[2] Xiaoke Ma*, Benhui Zhang, Changzhou Ma, Zhiyu Ma. Co-regularized nonnegative matrix factorization for evolving community detection in dynamic networks. Information Sciences. 528:265--279. 2020  中科院一区, IF=5.99

[3] Yanni Li, Bing Liu,  Zhi Wang, Jiangtao Cui, Kaicheng Yao, Pengfan Lv, Yulong Shen, Yuesheng Xu, Yuanfang Guan and Xiaoke Ma, COVID-19 Envolves in Human Hosts, SIGKDD, 2020 CCF A类会议

[4] Zhihao Huang, Xiaoxiong Zhong, Qiang Wang, Maoguo Gong, Xiaoke Ma*. Detecting community in attributed networks by dynamically exploring node attributes and topological structure. Knowledge-Based Systems. 196:105760. 2020  中科院一区, IF=8.08

[5]  Xiaoke Ma*, Penggang Sun, Maoguo Gong. An integrative framework of heterogeneous genomic data for cancer dynamic modules based on matrix decomposition. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI 10.1109/TCBB.2020.3004808. 2020  中科院二区, IF=3.89 ESI高被引论文

[6] Tengteng Yu#, Cui Du#,   Xiaoke Ma#, et al. Polycomb-like Protein 3 Induces Proliferation and Drug Resistance in Multiple Myeloma and Is Regulated by miRNA-15a. Molecular Cancer Research. 18(7): 0852. 2020  中科院二区, IF=4.95

[7] Yong Lin, Xiaoke Ma*. Predicting lincRNA-disease association in heterogeneous networks using co-regularized nonnegative matrix factorization. Frontiers in Genetics. 11:622234. 2020. 中科院三区

[8] Shiyin Tan, Xiaoke Ma*. SeHNE: Semi-supervised Heterogeneous Network Embedding for Drug Combination. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 1651-1655, 2020.  CCF B类会议

[9] Zijie Li, Xiaoke Ma*. Discovering Cell Types by Integrating Single-cell RNA-sequencing and protein interaction network. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 1656-1661, 2020.  CCF B类会议

2019年

[1] Xiaoke Ma*，Di Dong, Quan Wang. Community detection in multi-layer networks using joint nonnegative matrix factorization. IEEE Transactions on Knowledeg  and Data Engineering. 31(2):273-286. 2019  CCF A, IF=6.98 数据挖掘顶级期刊

[2] Xiaoke Ma*, Penggang Sun, Zhong-Yuan Zhang. An integrative framework for protein interaction and methylation data to discover epigenetic modules. IEEE/ACM Transaction Computational Biology and Bioinformatics. 16(6): 1855--1866 中科院二区，CCF B, IF=3.98

[3] Jianbang Zhao, Xiaoke Ma*.  Multiple partial regularized nonnegative matrix factorization for predicting ontological functions of lncRNAs. Frontiers in Genetics. 9:685. 2019.  中科院三区，IF=4.21

[4] Xiaoke Ma*，Dongyuan Li, Shiyin Tan, Zhihao Huang. Detecting evolving communities in dynamic networks using graph regularized evolutionary nonnegative matrix factorization. Physica a.  530:121279. 中科院二区，IF=2.50

[5] Xiaoke Ma*, Shiyin Tan, Dongyuan Li, Wenming Wu, Penggang Sun, Maoguo Gong. An integrative framework of heterogeneous genomic data for cancer dynamic modules based on matrix decomposition. BMC Genomics. Accepted. 中科院II区，IF=4.14

[6] Dongyuan Li, Xiaoke Ma*. Nonnegative matrix factorization for dynamic modules in cancer temporal networks. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 201-205, 2019.  CCF B

[7] Zuheng Xia,  Xiaoke Ma*. Transfer learning for gene prioritization. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM).  pp. 1787-1791, 2019.  CCF B

[8] Tengteng Yu, Chenxing Du, Zhen Yu, Lanting Liu, Zhao Lei, Zhongqing Li, Jie Xu, Xiaojing Wei, Shuhui Deng, Dehui Zou, Gang An, Yu-Tzu Tai, Guido Tricot, Xiaoke Ma*, Lugui Qiu*, Fenghuang Zhan*, Mu Hao*. PHF19 Promotes Drug Resistance via Increased EZH2 Phosphorylation in Multiple Myeloma. Molecular Cancer Research, 18(7):0852. 2019. 中科院二区
 

2018年

[1] Long Gao, Uzun Yasin, Peng Gao, Bing He, Xiaoke Ma, Jiahui Wang, Jindong Han, Kai Tan. Identifying noncoding risk variants using disease-relevant regulatory networks. Nature Communications. 8:702, 2018 中科院一区，IF=12.14

[2] Xiaoke Ma*, Wanxin Tang, et al. Extracting stage-specific and dynamic modules through analyzing multiple networks associated with cancer progression. IEEE/ACM Transaction Computational Biology and Bioinformatics. 15(8):647--658, 2018  中科院二区，CCF B, IF=3.98,  ESI高被引

[3] Xiaoke Ma*, Penggang Sun, Guimin Qin. Identifying  condition-specific modules by clustering multiple networks. IEEE/ACM Transactions  Computational Biology and Bioinformatics. 15(5):1636-1648, 2018 中科院二区，CCF B, IF=3.98

[4] Xiaoke Ma*, Bingbo Wang, Liang Yu. Semi-supervised spectral algorithms for community detection in complex networks based on equivalence of clustering methods. Physica a. 490:786--802, 2018 中科院二区，IF=2.48

[5] Xiaoke Ma*, Penggang Sun, Yu Wang. Graph regularized nonnegative matrix factorization for temporal link prediction in dynamic networks. Physica a. 496:121--136, 2018 中科院二区，IF=2.48

[6] Xiaoke Ma*, Penggang Sun. Fusing heterogeneous genomic data to discover cancer progression related dynamic modules. IEEE conference  on Bioinformatics  and Biomedicine (IEEE BIBM). pp. 114-121, 2018.  CCF B

[7] Enli Zhang, Xiaoke Ma*.   Regularized multi-view subspace clustering for common modules across cancer stages. Molecules. 23, 1016. 中科院III区，IF=3.42

[8] 付立东，马小科*. 进化谱分算法检测动态网络社团结构. 西安电子科技大学学报. 45(2): 43-48. 2018 EI

 

2017年

[1] Xiaoke Ma*，Di Dong. Evolutionary Nonnegative Matrix Factorization Algorithms for Community Detection in Dynamic Networks. IEEE Trans. Know.  & Data. Eng. 29(5)1045-1058. CCF A, IF=6.98 数据挖掘顶级期刊 
[2] Fengyin Li, Bing He, Xiaoke Ma, Shuyang Yu, Rupali R. Bhave, Steven R. Lentz, Kai Tan, Monica L. Guzman, Chen Zhao,  Hai-Hui Xue. Prostaglandin E1 and Its Analog Misoprostol Inhibit Human CML Stem Cell Self-Renewal via EP4 Receptor Activation and Repression of AP-1. Cell Stem Cell. 21(2017)1--15  中科院一区，IF=23.96 封面论文  Cell出版社评价“最透明”与“最具同行评议”论文

[3] Xiaoke Ma*, Penggang Sun, Guimin Qin. Nonnegative matrix factorization algorithms for link prediction in temporal networks using graph communicability. Pattern Recognition. 71(2017)361-374. 中科院一区, IF=7.32 模式识别顶级期刊
[4] Penggang Sun, Xiaoke Ma*. Dominating communities for hierarchical control of complex networks. Information Sciences. 414(2017)247--259. 中科院一区, IF=5.99
[5] Wanxin Tang，Dongmei Zhang, Xiaoke Ma*. RNA-Sequencing Reveals Genome-Wide Long Non-coding RNAs Profiling Associated with Early Development of Diabetic Nephropathy. Oncotarget. 8（62）105832--105847 中科院I区，IF=5.96
[6] Xiaoke Ma, Zaiyi Liu, Zhongyuan Zhang, Xiaotai Huang, Wanxin Tang*. Multiple network algorithm for epigenetic modules via the integration of genome-wide DNA methylation and gene expression data. BMC Bioinformatics. 1:18 中科院二区，IF=2.67
[7] Penggang Sun, Xiaoke Ma*. Understanding the controllability of complex networks from the microcosmic to the macrocosmic.  New Journal of Physics. 19: 013022 中科院二区，IF=3.69
[8] Penggang Sun, Xiaoke Ma*. Controllability and observability of cascading failure networks. Journal of Statistical Mechanics: Theory and Experiment. 2017:043404 中科院二区，IF=2.49
[9] Peizhuo Wang, Lin Gao, Xiaoke Ma*. Dynamic community detection based on network structural perturbation and topological similarity. Journal of Statistical Mechanics: Theory and Experiment. 2017:013401 中科院二区，IF=2.49

[10] Penggang Sun, Xiaoke Ma*. Understanding control of network spreading from network controllability. Journal of Statistical Mechanics: Theory and Experiment. 2017:093405 中科院二区，IF=2.49
[11] Xiaoke Ma*, Peizhuo Wang, Liang Yu, Xiaofei Yang. Discovering DNA methylation patterns for longnon-coding RNAs associated with cancer subtypes. Computional Biology and Chemistry. 69:164--170 中科院III区，IF=1.67 APBC2017推荐

[12] Penggang Sun, Xiaoke Ma*. Dominating complex networks by identifying minimum skeletons. Chaos, Solitons and Fractals. 104:182--191.  中科院四区，IF=1.45

[13]  Xiaoke Ma*, Penggang Sun, Jianbang Zhao. Multi-objective optimization algorithm to discover condition-specific modules in multiple networks. Molecules.  22, 2228.  中科院三区，IF=3.40

 

2016-2013年

[1] Xiaoke Ma, Long Gao, Georgios Karamanlidis, et al. Revealing Pathway Dynamics in Heart Diseases by Analyzing Multiple Differential Networks. PLoS Computational Biology. 2015: e1003442.  中科院一区, IF=6.32  数据挖掘顶级期刊

[2] Xiaoke Ma, Long Gao, Kai Tan. Modeling disease progression using dynamics of pathway connectivity. Bioinformatics. 2014, 30:2343--2350 中科院一区，CCF B, IF=6.99 数据挖掘顶级期刊

[3] Xingli Guo, Lin Gao, Qi Liao, Hui Xiao, Xiaoke Ma, Xiaofei Yang, Haitao Luo, Guoguang Zhao, Dechao Bu, Fei Jiao, Qixiang Shao, RunSheng Chen* and Yi Zhao. Long non-coding RNAs function annotation: a global prediction method based on bi-colored networks. Nuclear Acids Research. 2013, 41:e35. 中科院一区， IF=14.42

[4] Feng Li, Lin Gao, Xiaoke Ma, Xiaofei Yang. Detection of driver pathways using mutated gene network in cancer. Molecular BioSystem. 2016,  中科院III区，IF=3.29

[5] Liang Yu, Bingbo Wang, Xiaoke Ma, Lin Gao. The extraction of drug-disease correlations based on module distance in incomplete human interactome. BMC Systems Biology, 2016, 10(Suppl 4):111 中科院三区，IF=2.33

[6] Liang Yu, Xiaoke Ma, Long Zhang, Jing Zhao, Lin Gao. Prediction of new drug indications based on clinical data and network modularity. Scientific Reports. 2016, 6:32530 中科院三区，IF=4.33

 

2012-2010年

[1] Xiaoke Ma*, Lin Gao. Predicting protein complexes in protein interaction networks using a core-attachment algorithm based on graph communicability. Information Sciences. 2012, 189:233--254. 中科院一区, IF=5.99

[2] Xiaoke Ma，Lin Gao*. Biological network analysis: insights into structure and functions. Briefings in Functional Genomics. 2012, 6:434--442. 中科院二区，IF=4.26

[3] Xiaoke Ma, Lin Gao*. Discovering protein complexes in protein interaction networks via exploring the weak ties effect. BMC Systems Biology. 2012, 6(Suppl 1):S6. 中科院三区，IF=2.33

[4] 付立东，高琳，马小科. 基于社团检测的复杂网络中心性方法. 中国科学：信息科学，42(5)：550-560. 2012. 中科院一区，CCF A类

[5] Xiaoke Ma*. Lin Gao. Detecting protein complexes in PPI networks: The roles of interactions. IEEE International Conference on Systems Biology. pp. 52-59  2011.

[6] Xiaoke Ma*，Lin Gao. Non-traditional spectral clustering algorithms for the detection of community structure in complex networks: a comparative analysis. Journal of Statistical Mechanics: Theory and Experiment. 2011:P05012 中科院二区，IF=2.49
[7] Xiaoke Ma*, Lin Gao, Xuerong Yong, Lidong Fu. Semi-supervised clustering algorithm for community structure detection in complex networks. Physica A. 2010, 389:187--197. 中科院二区，IF=2.48

[8] Xiaoke Ma*, Lin Gao, Xuerong Yong. Eigenspaces of networks reveal the overlapping and hierarchical community structure more precisely. Journal of Statistical Mechanics: Theory and Experiment. 2010:P08012 中科院二区，IF=2.49

[9] Lidong Fu, Lin Gao, Xiaoke Ma. A centrality measure based on the spectral optimization of modularity density. Sciences in China Series F. 2010, 53:1727--1737. 中科院一区，IF=4.37