Luonan Chen

ORCID

Publication Activity (10 Years)

Years Active: 1995-2024
Publications (10 Years): 75

Top Venues

Publications

Lequn Wang, Yaofeng Hu, Kai Xiao, Chuanchao Zhang, Qianqian Shi, Luonan Chen
Multi-modal domain adaptation for revealing spatial functional landscape from spatially resolved transcriptomics. Briefings Bioinform. 25 (4) (2024)
Jifan Shi, Yang Li, Juan Zhao, Siyang Leng, Kazuyuki Aihara, Luonan Chen, Wei Lin
Deciphering interventional dynamical causality from non-intervention systems. CoRR (2024)
Qibin Zhang, Chengshang Lyu, Lingxi Chen, Qiqi Jin, Luonan Chen
CIDER: Counterfactual-Invariant Diffusion-based GNN Explainer for Causal Subgraph Inference. CoRR (2024)
Yi-Xuan Xiong, Meng-Guo Wang, Luonan Chen, Xiao-Fei Zhang
Cell-type annotation with accurate unseen cell-type identification using multiple references. PLoS Comput. Biol. 19 (6) (2023)
Peng Tao, Xiaohu Hao, Jie Cheng, Luonan Chen
Predicting time series by data-driven spatiotemporal information transformation. Inf. Sci. 622 (2023)
Lin Li, Rui Xia, Wei Chen, Qi Zhao, Peng Tao, Luonan Chen
Single-cell causal network inferred by cross-mapping entropy. Briefings Bioinform. 24 (5) (2023)
Yuanling Niu, Hao Kang, Pingyang Wang, Chenchen Guo, Fan Nie, Hongbin Ji, Jiarui Wu, Luonan Chen
Why Increase of Heterogeneity Signals Pre-Deterioration During Tumor Progression: A Unified Mathematical Model. SIAM J. Appl. Math. 83 (2) (2023)
Chengming Zhang, Yiwen Yang, Shijie Tang, Kazuyuki Aihara, Chuanchao Zhang, Luonan Chen
Contrastively generative self-expression model for single-cell and spatial multimodal data. Briefings Bioinform. 24 (5) (2023)
Peng Tao, Xiaohu Hao, Jie Cheng, Luonan Chen
Time Series Prediction by Multi-task GPR with Spatiotemporal Information Transformation. CoRR (2022)
Peng Tao, Jie Cheng, Luonan Chen
Brain-inspired chaotic backpropagation for MLP. Neural Networks 155 (2022)
Yu Zhang, Xiao Chang, Jie Xia, Yanhong Huang, Shaoyan Sun, Luonan Chen, Xiaoping Liu
Identifying network biomarkers of cancer by sample-specific differential network. BMC Bioinform. 23 (1) (2022)
Jining Wang, Chuan Chen, Zibin Zheng, Luonan Chen, Yuren Zhou
Predicting high-dimensional time series data with spatial, temporal and global information. Inf. Sci. 607 (2022)
Jinwang Feng, ShaoWu Zhang, Luonan Chen, Chunman Zuo, Alzheimer's Disease Neuroimaging Initiative
Detection of Alzheimer's disease using features of brain region-of-interest-based individual network constructed with the sMRI image. Comput. Medical Imaging Graph. 98 (2022)
Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-Hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng, Anna Maria Masci, Liwei Wang, Hongfang Liu, Fatima Zohra Smaili, Robert Hoehndorf, Zoë May Pendlington, Paola Roncaglia, Xianwei Ye, Jiangan Xie, Yi-Wei Tang, Xiaolin Yang, Suyuan Peng, Luxia Zhang, Luonan Chen, Junguk Hur, Gilbert S. Omenn, Brian D. Athey, Barry Smith
A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology. J. Biomed. Semant. 13 (1) (2022)
Rong Gao, Jinling Yan, Peiluan Li, Luonan Chen
Detecting the critical states during disease development based on temporal network flow entropy. Briefings Bioinform. 23 (5) (2022)
Yiwei Meng, Yanhong Huang, Xiao Chang, Xiaoping Liu, Luonan Chen
Transcriptome analysis method based on differential distribution evaluation. Briefings Bioinform. 23 (2) (2022)
Chengming Zhang, Yabin Chen, Tao Zeng, Chuanchao Zhang, Luonan Chen
Deep latent space fusion for adaptive representation of heterogeneous multi-omics data. Briefings Bioinform. 23 (2) (2022)
Yujie You, Le Zhang, Tao Peng, Suran Liu, Luonan Chen
Spatiotemporal Transformer Neural Network for Time-Series Forecasting. Entropy 24 (11) (2022)
Jinwang Feng, Shaowu Zhang, Luonan Chen
Extracting ROI-Based Contourlet Subband Energy Feature From the sMRI Image for Alzheimer's Disease Classification. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (3) (2022)
Le Zhang, Guangdi Liu, Meijing Kong, Tingting Li, Dan Wu, Xiaobo Zhou, Chuanwei Yang, Lei Xia, Zhenzhou Yang, Luonan Chen
Revealing dynamic regulations and the related key proteins of myeloma-initiating cells by integrating experimental data into a systems biological model. Bioinform. 37 (11) (2021)
Luonan Chen, Rong Fan, Fuchou Tang
Advanced Single-cell Omics Technologies and Informatics Tools for Genomics, Proteomics, and Bioinformatics Analysis. Genom. Proteom. Bioinform. 19 (3) (2021)
Hao Peng, Pei Chen, Rui Liu, Luonan Chen
Spatiotemporal convolutional network for time-series prediction and causal inference. CoRR (2021)
Jinwang Feng, Shaowu Zhang, Luonan Chen, Jie Xia
Alzheimer's disease classification using features extracted from nonsubsampled contourlet subband-based individual networks. Neurocomputing 421 (2021)
Lin Li, Hao Dai, Zhaoyuan Fang, Luonan Chen
c-CSN: Single-cell RNA Sequencing Data Analysis by Conditional Cell-specific Network. Genom. Proteom. Bioinform. 19 (2) (2021)
Yanhong Huang, Xiao Chang, Yu Zhang, Luonan Chen, Xiaoping Liu
Disease characterization using a partial correlation-based sample-specific network. Briefings Bioinform. 22 (3) (2021)
Chunman Zuo, Hao Dai, Luonan Chen
Deep cross-omics cycle attention model for joint analysis of single-cell multi-omics data. Bioinform. 37 (22) (2021)
Chunman Zuo, Luonan Chen
Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data. Briefings Bioinform. 22 (4) (2021)
Weifeng Guo, Shaowu Zhang, Tao Zeng, Tatsuya Akutsu, Luonan Chen
Network control principles for identifying personalized driver genes in cancer. Briefings Bioinform. 21 (5) (2020)
Jinwang Feng, Shao-Wu Zhang, Luonan Chen, Alzheimer's Disease Neuroimaging Initiative
Identification of Alzheimer's disease based on wavelet transformation energy feature of the structural MRI image and NN classifier. Artif. Intell. Medicine 108 (2020)
Peng Wang, Luonan Chen
Critical transitions and tipping points in EMT. Quant. Biol. 8 (3) (2020)
Rui Liu, Pei Chen, Luonan Chen
Single-sample landscape entropy reveals the imminent phase transition during disease progression. Bioinform. 36 (5) (2020)
Jifan Shi, Juan Zhao, Xiaoping Liu, Luonan Chen, Tiejun Li
Quantifying Direct Dependencies in Biological Networks by Multiscale Association Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. 17 (2) (2020)
Hanah Goetz, Juan R. Melendez-Alvarez, Luonan Chen, Xiao-Jun Tian
A plausible accelerating function of intermediate states in cancer metastasis. PLoS Comput. Biol. 16 (3) (2020)
Yidi Sun, Chen Li, Shichao Pang, Qianlan Yao, Luonan Chen, Yixue Li, Rong Zeng
Kinase-substrate Edge Biomarkers Provide A More Accurate Prognostic Prediction in ER-negative Breast Cancer. Genom. Proteom. Bioinform. 18 (5) (2020)
Jingxue Xin, Junjun Hao, Lang Chen, Tao Zhang, Lei Li, Luonan Chen, Wenmin Zhao, Xuemei Lu, Peng Shi, Yong Wang
ZokorDB: tissue specific regulatory network annotation for non-coding elements of plateau zokor. Quant. Biol. 8 (1) (2020)
Luonan Chen
Network biomarker for quantifying regular state of a biological system, and dynamic network biomarker for quantifying critical state of a biological system. BIBM (2020)
Yongqun He, Hong Yu, Edison Ong, Yang Wang, Yingtong Liu, Anthony Huffman, Hsin-Hui Huang, John Beverley, Asiyah Yu Lin, William D. Duncan, Sivaram Arabandi, Jiangan Xie, Junguk Hur, Xiaolin Yang, Luonan Chen, Gilbert S. Omenn, Brian D. Athey, Barry Smith
CIDO: The Community-Based Coronavirus Infectious Disease Ontology. ICBO/ODLS (2020)
Jingsong Zhang, Cheng Bi, Yinglin Wang, Tao Zeng, Bo Liao, Luonan Chen
Efficient Mining Closed k-Mers from DNA and Protein Sequences. BigComp (2020)
Jifan Shi, Andrew E. Teschendorff, Weiyan Chen, Luonan Chen, Tiejun Li
Quantifying Waddington's epigenetic landscape: a comparison of single-cell potency measures. Briefings Bioinform. 21 (1) (2020)
Ziwei Chen, Xiangqi Bai, Liang Ma, Xiawei Wang, Xiuqin Liu, Yuting Liu, Luonan Chen, Lin Wan
A Branch Point on Differentiation Trajectory is the Bifurcating Event Revealed by Dynamical Network Biomarker Analysis of Single-Cell Data. IEEE ACM Trans. Comput. Biol. Bioinform. 17 (2) (2020)
Jihong Hu, Tao Zeng, Qiongmei Xia, Liyu Huang, Yesheng Zhang, Chuanchao Zhang, Yan Zeng, Hui Liu, Shilai Zhang, Guangfu Huang, Wenting Wan, Yi Ding, Fengyi Hu, Congdang Yang, Luonan Chen, Wen Wang
Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis. Genom. Proteom. Bioinform. 18 (3) (2020)
Rui Liu, Pei Chen, Luonan Chen
Corrigendum to: Single-sample landscape entropy reveals the imminent phase transition during disease progression. Bioinform. 36 (8) (2020)
Jingsong Zhang, Jianmei Guo, Ming Zhang, Xiangtian Yu, Xiaoqing Yu, Weifeng Guo, Tao Zeng, Luonan Chen
Efficient Mining Multi-Mers in a Variety of Biological Sequences. IEEE ACM Trans. Comput. Biol. Bioinform. 17 (3) (2020)
Samantha Sayers, Li Li, Edison Ong, Shunzhou Deng, Guanghua Fu, Yu Lin, Brian Yang, Shelley Zhang, Zhenzong Fa, Bin Zhao, Zuoshuang Xiang, Yongqing Li, Xing-Ming Zhao, Michal Olszewski, Luonan Chen, Yongqun He
Victors: a web-based knowledge base of virulence factors in human and animal pathogens. Nucleic Acids Res. 47 (Database-Issue) (2019)
Yongcui Wang, Shilong Chen, Luonan Chen, Yong Wang
Associating lncRNAs with small molecules via bilevel optimization reveals cancer-related lncRNAs. PLoS Comput. Biol. 15 (12) (2019)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Systems biology intertwines with single cell and AI. BMC Bioinform. (7) (2019)
Chuan Chen, Jingxue Xin, Yong Wang, Luonan Chen, Michael K. Ng
A Semisupervised Classification Approach for Multidomain Networks With Domain Selection. IEEE Trans. Neural Networks Learn. Syst. 30 (1) (2019)
Weifeng Guo, Shao-Wu Zhang, Tao Zeng, Yan Li, Jianxi Gao, Luonan Chen
A novel network control model for identifying personalized driver genes in cancer. PLoS Comput. Biol. 15 (11) (2019)
Jifan Shi, Tiejun Li, Luonan Chen, Kazuyuki Aihara
Quantifying pluripotency landscape of cell differentiation from scRNA-seq data by continuous birth-death process. PLoS Comput. Biol. 15 (11) (2019)
Weifeng Guo, Shao-Wu Zhang, Li-Li Liu, Fei Liu, Qianqian Shi, Lei Zhang, Ying Tang, Tao Zeng, Luonan Chen
Discovering personalized driver mutation profiles of single samples in cancer by network control strategy. Bioinform. 34 (11) (2018)
Hao Jiang, Lydia L. Sohn, Haiyan Huang, Luonan Chen
Single cell clustering based on cell-pair differentiability correlation and variance analysis. Bioinform. 34 (21) (2018)
Xiujuan Lei, Ming Fang, Fang-Xiang Wu, Luonan Chen
Improved flower pollination algorithm for identifying essential proteins. BMC Syst. Biol. 12 (4) (2018)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Integrating data- and model-driven strategies in systems biology. BMC Syst. Biol. 12 (4) (2018)
Chuanchao Zhang, Juan Liu, Qianqian Shi, Tao Zeng, Luonan Chen
Differential function analysis: identifying structure and activation variations in dysregulated pathways. Sci. China Inf. Sci. 60 (1) (2017)
Ben-gong Zhang, Weibo Li, Yazhou Shi, Xiaoping Liu, Luonan Chen
Detecting causality from short time-series data based on prediction of topologically equivalent attractors. BMC Syst. Biol. 11 (S-7) (2017)
Xiaoping Liu, Xiao Chang, Rui Liu, Xiangtian Yu, Luonan Chen, Kazuyuki Aihara
Quantifying critical states of complex diseases using single-sample dynamic network biomarkers. PLoS Comput. Biol. 13 (7) (2017)
Chuanchao Zhang, Juan Liu, Qianqian Shi, Tao Zeng, Luonan Chen
Comparative network stratification analysis for identifying functional interpretable network biomarkers. BMC Bioinform. 18 (S-3) (2017)
Qianqian Shi, Chuanchao Zhang, Minrui Peng, Xiangtian Yu, Tao Zeng, Juan Liu, Luonan Chen
Pattern fusion analysis by adaptive alignment of multiple heterogeneous omics data. Bioinform. 33 (17) (2017)
Jingsong Zhang, Jianmei Guo, Xiaoqing Yu, Xiangtian Yu, Weifeng Guo, Tao Zeng, Luonan Chen
Mining K-mers of Various Lengths in Biological Sequences. ISBRA (2017)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Understanding biological systems through the lens of data. BMC Syst. Biol. 11 (S-4) (2017)
Guangyong Zheng, Yaochen Xu, Xiujun Zhang, Zhi-Ping Liu, Zhuo Wang, Luonan Chen, Xin-Guang Zhu
CMIP: a software package capable of reconstructing genome-wide regulatory networks using gene expression data. BMC Bioinform. 17 (S-17) (2016)
Chuanchao Zhang, Juan Liu, Qianqian Shi, Xiangtian Yu, Tao Zeng, Luonan Chen
Integration of multiple heterogeneous omics data. BIBM (2016)
Tao Zeng, Wanwei Zhang, Xiangtian Yu, Xiaoping Liu, Meiyi Li, Luonan Chen
Big-data-based edge biomarkers: study on dynamical drug sensitivity and resistance in individuals. Briefings Bioinform. 17 (4) (2016)
Fei Liu, Shao-Wu Zhang, Weifeng Guo, Ze-Gang Wei, Luonan Chen
Inference of Gene Regulatory Network Based on Local Bayesian Networks. PLoS Comput. Biol. 12 (8) (2016)
Pei Chen, Rui Liu, Yongjun Li, Luonan Chen
Detecting critical state before phase transition of complex biological systems by hidden Markov model. Bioinform. 32 (14) (2016)
Hui-Jia Li, Hao Wang, Luonan Chen
Measuring robustness of community structure in complex networks. CoRR (2015)
Shi-Hua Zhang, Luonan Chen
Guest Editorial for Special Section on ISB/TBC 2014. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (5) (2015)
Hao Kang, Kwang-Hyun Cho, Xiaohua Douglas Zhang, Tao Zeng, Luonan Chen
Inferring Sequential Order of Somatic Mutations during Tumorgenesis based on Markov Chain Model. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (5) (2015)
Takayuki Ishizaki, Kenji Kashima, Antoine Girard, Jun-ichi Imura, Luonan Chen, Kazuyuki Aihara
Clustered model reduction of positive directed networks. Autom. 59 (2015)
Xinan Yang, Meiyi Li, Bin Wang, Wanqi Zhu, Aurelie Desgardin, Kenan Onel, Jill de Jong, Jianjun Chen, Luonan Chen, John M. Cunningham
Systematic computation with functional gene-sets among leukemic and hematopoietic stem cells reveals a favorable prognostic signature for acute myeloid leukemia. BMC Bioinform. 16 (2015)
Xindong Zhang, Lin Gao, Zhi-Ping Liu, Luonan Chen
Identifying module biomarker in type 2 diabetes mellitus by discriminative area of functional activity. BMC Bioinform. 16 (2015)
Hui-Jia Li, Junhua Zhang, Zhi-Ping Liu, Luonan Chen, Xiang-Sun Zhang
Identifying overlapping communities in social networks using multi-scale local information expansion. CoRR (2015)
Chuanchao Zhang, Juan Liu, Qianqian Shi, Tao Zeng, Luonan Chen
Identification of phenotypic networks based on whole transcriptome by comparative network decomposition. BIBM (2015)
Xing-Ming Zhao, Keqin Liu, Guanghui Zhu, Feng He, Béatrice Duval, Jean-Michel Richer, De-Shuang Huang, Changjun Jiang, Jin-Kao Hao, Luonan Chen
Identifying cancer-related microRNAs based on gene expression data. Bioinform. 31 (8) (2015)
Ben-gong Zhang, Gouhei Tanaka, Kazuyuki Aihara, Masao Honda, Shuichi Kaneko, Luonan Chen
Dynamics of an HBV Model with Drug Resistance Under Intermittent Antiviral Therapy. Int. J. Bifurc. Chaos 25 (7) (2015)
Yixue Li, Luonan Chen
Big Biological Data: Challenges and Opportunities. Genom. Proteom. Bioinform. 12 (5) (2014)
Andrew E. Teschendorff, Xiaoping Liu, Helena Carén, Steve M. Pollard, Stephan Beck, Martin Widschwendter, Luonan Chen
The Dynamics of DNA Methylation Covariation Patterns in Carcinogenesis. PLoS Comput. Biol. 10 (7) (2014)
Rui Liu, Xiangtian Yu, Xiaoping Liu, Dong Xu, Kazuyuki Aihara, Luonan Chen
Identifying critical transitions of complex diseases based on a single sample. Bioinform. 30 (11) (2014)
Tao Zeng, Ziming Wang, Luonan Chen
Detecting Phosphorylation Determined Active Protein Interaction Network during Cancer Development by Robust Network Component Analysis. DTMBIO@CIKM (2014)
Xiangtian Yu, Guojun Li, Luonan Chen
Prediction and early diagnosis of complex diseases by edge-network. Bioinform. 30 (6) (2014)
Luonan Chen, Doheon Lee, Hua Xu, Min Song
DTMBIO 2014: International Workshop on Data and Text Mining in Biomedical Informatics. CIKM (2014)
Meiyi Li, Tao Zeng, Rui Liu, Luonan Chen
Detecting tissue-specific early warning signals for complex diseases based on dynamical network biomarkers: study of type 2 diabetes by cross-tissue analysis. Briefings Bioinform. 15 (2) (2014)
Huanfei Ma, Tianshou Zhou, Kazuyuki Aihara, Luonan Chen
Predicting Time Series from Short-Term High-Dimensional Data. Int. J. Bifurc. Chaos 24 (12) (2014)
Xiujun Zhang, Keqin Liu, Zhi-Ping Liu, Béatrice Duval, Jean-Michel Richer, Xing-Ming Zhao, Jin-Kao Hao, Luonan Chen
NARROMI: a noise and redundancy reduction technique improves accuracy of gene regulatory network inference. Bioinform. 29 (1) (2013)
Rui Liu, Kazuyuki Aihara, Luonan Chen
Dynamical network biomarkers for identifying critical transitions and their driving networks of biologic processes. Quant. Biol. 1 (2) (2013)
Zhiyuan Yang, Yan Zhang, Luonan Chen
Investigation of anti-cancer mechanisms by comparative analysis of naked mole rat and rat. BMC Syst. Biol. 7 (S-2) (2013)
Chao Zhang, Jiguang Wang, Kristina Hanspers, Dong Xu, Luonan Chen, Alexander R. Pico
NOA: a cytoscape plugin for network ontology analysis. Bioinform. 29 (16) (2013)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Computational systems biology in the big data era. BMC Syst. Biol. 7 (S-2) (2013)
Luonan Chen
Identifying Critical Transitions of Biological Processes by Dynamical Network Biomarkers. ISBRA (2013)
Zhenshu Wen, Zhi-Ping Liu, Zhengrong Liu, Yan Zhang, Luonan Chen
Research and applications: An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer. J. Am. Medical Informatics Assoc. 20 (4) (2013)
Xiaoping Liu, Xiaodong Zhang, Weihua Tang, Luonan Chen, Xing-Ming Zhao
. Database J. Biol. Databases Curation 2013 (2013)
Xiaoping Liu, Zhi-Ping Liu, Xing-Ming Zhao, Luonan Chen
Identifying disease genes and module biomarkers by differential interactions. J. Am. Medical Informatics Assoc. 19 (2) (2012)
Luonan Chen, Michael K. Ng
Guest Editorial: Bioinformatics and Computational Systems Biology. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (4) (2012)
Keqin Liu, Zhi-Ping Liu, Jin-Kao Hao, Luonan Chen, Xing-Ming Zhao
Identifying dysregulated pathways in cancers from pathway interaction networks. BMC Bioinform. 13 (2012)
Tao Zeng, Luonan Chen
Correction: Tracing dynamic biological processes during phase transition. BMC Syst. Biol. 6 (S-1) (2012)
Zhi-Ping Liu, Jiguang Wang, Yu-Qing Qiu, Ross K. K. Leung, Xiang-Sun Zhang, Stephen Kwok-Wing Tsui, Luonan Chen
Inferring a protein interaction map of Mycobacterium tuberculosis based on sequences and interologs. BMC Bioinform. 13 (S-7) (2012)
Takayuki Ishizaki, Kenji Kashima, Antoine Girard, Jun-ichi Imura, Luonan Chen, Kazuyuki Aihara
Clustering-based ℌ2-state aggregation of positive networks and its application to reduction of chemical master equations. CDC (2012)
Hongjuan Zhang, Zikai Wu, Shuxue Ding, Luonan Chen
A fixed-point blind source extraction algorithm and its application to ECG data analysis. ISB (2012)
Zhiyuan Yang, Yan Zhang, Luonan Chen
in silico identification of novel cancer-related genes by comparative genomics of naked mole rat and rat. ISB (2012)
Guanying Piao, Shigeru Saito, Yidan Sun, Zhi-Ping Liu, Yong Wang, Xiao Han, Jiarui Wu, Huarong Zhou, Luonan Chen, Katsuhisa Horimoto
A computational procedure for identifying master regulator candidates: a case study on diabetes progression in Goto-Kakizaki rats. BMC Syst. Biol. 6 (S-1) (2012)

Luonan Chen.css-eqlu8i{font-size:small;padding-left:4px;}

Publication Activity (10 Years)

Top Topics

Top Venues

Luonan Chen