Haoyang Zhang, Sha Liu, Bingxin Li, Xionghui Zhou*, IPFMC: an iterative pathway fusion approach for enhanced multi-omics clustering in cancer research, Briefings in Bioinformatics, Volume 25, Issue 6, November 2024, bbae541, https://doi.org/10.1093/bib/bbae541
Xiang-Yu Meng#, Xiong-Hui Zhou#, Shuo Li#, Ming-Jun Shi#, Xuan-Hao Li, Bo-Yu Yang, Min Liu, Ke-Zhen Yi, Yun-Ze Wang, Hong-Yu Zhang*, Jian Song*, Fu-Bing Wang*, Xing-Huan Wang*, Machine Learning-Based Detection of Bladder Cancer by Urine cfDNA Fragmentation Hotspots that Capture Cancer-Associated Molecular Features, Clinical Chemistry, 2024;hvae156, https://doi.org/10.1093/clinchem/hvae156
Hou Y, Meng XY*, Zhou X*. Systematically Evaluating Cell-Free DNA Fragmentation Patterns for Cancer Diagnosis and Enhanced Cancer Detection via Integrating Multiple Fragmentation Patterns. Advanced Science. 2024 Jun 17:e2308243. doi: 10.1002/advs.202308243. Epub ahead of print. PMID: 38881520. https://onlinelibrary.wiley.com/doi/10.1002/advs.202308243
Kuan Xie, Yuying Hou, Xionghui Zhou*. Deep centroid: a general deep Cascade classifier for biomedical omics data classification, Bioinformatics, 2024; btae039, https://doi.org/10.1093/bioinformatics/btae039
Shi P#, Han J#, Zhang Y, Li G, Zhou X*. IMI-driver: Integrating multi-level gene networks and multi-omics for cancer driver gene identification. PLoS Computational Biology. 2024 Aug 26;20(8):e1012389. doi: 10.1371/journal.pcbi.1012389. Epub ahead of print. PMID: 39186807. https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012389
Xionghui Zhou, Haizi Zheng, Hailu Fu, Kelsey L. Dillehay McKillip, Susan M. Pinney, Yaping Liu#. CRAG: de novo characterization of cell-free DNA fragmentation hotspots in plasma whole-genome sequencing. Genome Med. 2022 Dec 8;14(1):138. doi: 10.1186/s13073-022-01141-8.
He-Gang Chen, Xiong-Hui Zhou*. MNBDR: A Module Network Based Method for Drug Repositioning. Genes. 2021; 12(1): 25.
Ze-Jia Cui†,Min Gao†,Yuan Quan,Bo-Min Lv,Xin-Yu Tong,Teng-Fei Dai,Xiong-Hui Zhou* and Hong-Yu Zhang*,*Systems Pharmacology-Based Precision Therapy and Drug Combination Discovery for Breast Cancer. Cancers 2021, 13(14), 3586; https://doi.org/10.3390/cancers13143586.
Lu Bo, Xiong-Hui Zhou*. Ensemble Classifier based on gene synergistic network improves breast cancer outcome prediction. IEEE International Conference on Bioinformatics and Biomedicine (BIBM). 2019; 207-210.
Xiong-Hui Zhou, Xin-Yi Chu, Gang Xue, Jiang-Hui Xiong, Hong-Yu Zhang*. Identifying cancer prognostic modules by module network analysis. Bmc Bioinformatics 20 2019,20:85.
Ze-Jia Cui, Xiong-Hui Zhou*, Hong-Yu Zhang*. DNA Methylation Module Network-Based Prognosis and Molecular Typing of Cancer. Genes. 2019; 10(8): 571.
Jia-Nuo Li#, Rui Zhong#, and Xiong-Hui Zhou*. Prediction of bone metastasis in breast cancer based on minimal driver gene set in gene dependency network. Genes. 2019; 10(6): 466.
Gao Yi-Cheng, Xiong-Hui Zhou* and Wen Zhang*. An ensemble strategy to predict prognosis in ovarian cancer based on gene modules. Frontiers in genetics. 2019; 10:366.
Ling-Hao Yu, Qin-Wei Huang, Xiong-Hui Zhou*. Identification of Cancer Hallmarks Based on the Gene Co-expression Networks of Seven Cancers. Frontiers in Genetics 2019,10: https://doi.org/10.3389/fgene.2019.00099.
Wei-Lin Hu, Xiong-Hui Zhou*.Identification of prognostic signature in cancer based on DNA methylation interaction network. Bmc Medical Genomics, 2017, 10(4):63.
Xin-Yi Chu, Ling-Han Jiang , Xiong-Hui Zhou*, Ze-Jia Cui and Hong-Yu Zhang. Evolutionary Origins of Cancer Driver Genes and Implications for Cancer Prognosis. Genes, 2017,8(7).
Jianyong Wang, Lingling Chen, Xiong-Hui Zhou*. Identifying prognostic signature in ovarian cancer using DirGenerank. Oncotarget, 2017,doi: 10.18632/oncotarget.18189.
Xiwen Xu#, Xiong-Hui Zhou#, Ruiru Wang, Wenlei Peng, Yue An, Lingling Chen*. Functional analysis of long intergenic non-coding RNAs in phosphate starved rice using competing endogenous RNA network, Scientific Reports 6, 2016, doi: 10.1038/srep20715.
Xionghui Zhou，Juan Liu. Inferring gene dependency network specific to phenotypic alteration based on gene expression data and clinical information of breast cancer. PLoS ONE 9(3): e92023.
Xionghui Zhou, Juan Liu. A computational model to predict bone metastasis in breast cancer by integrating the dysregulated pathways. BMC Cancer 2014, 14:618.
Xionghui Zhou, Juan Liu, Wei Wang. Construction and investigation of breast-cancer-specific ceRNA network based on the mRNA and miRNA expression data. IET systems biology 8(3):pp.96-103.
Xionghui Zhou, Juan Liu, Xinhuo Ye, Wei Wang, Jianghui Xiong. Ensemble classifier based on context specific miRNA regulation modules: a new method for cancer outcome prediction. BMC Bioinformatics, 14(Suppl 12):S6.
Xionghui Zhou, Juan Liu, Jianghui Xiong. Predicting distant metastasis in breast cancer using ensemble classifier based on context specific miRNA regulation modules, 2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). pp. 1-6.
Xionghui Zhou, Juan Liu, Changning Liu, Rayner, S., Fengji Liang, Jingfang Ju, Yinghui Li, Shanguang Chen, Jianghui Xiong. Context-Specific miRNA Regulation Network Predicts Cancer Prognosis. IEEE international conference on system biology (ISB), 2011, pp. 225-243.
This is a scientific research project that the teacher participated in and presided over.
Cancer hallmark mining based on DNA methylation interactive network and its application in cancer metastasis biomarker screening, National Natural Science Foundation of China (61602201), 2017.1-2019.12, 200K yuan.
Research on cancer hallmark mining based on DNA methylation interactive network and its application in cancer prognosis, Hubei Natural Science Foundation (2016CFB139), 2016.1-2017.12, 50K yuan.
Breast cancer subtype precision medical treatment based on GeneRank (09002021122), the Fundamental Research Funds for the Central Universities, 2018.1-2020.12, 300K yuan.