First-author and corresponding papers:

Shihua Zhang, Xiaolong He, Rui Zhang, and Wensheng Deng, LncR2metasta: a manual curated database for experimentally supported lncRNAs during various cancer metastatic events, Briefings in Bioinformatics 2020, doi: 0.1093/bib/bbaa178

Zhang, Ying Chen, Xiaolong He, Jinke Du, Rui Zhang, Yong Ma, Xiaoyi Hu, Zhaoliang Zhang, Qi Chen, and Xiaochun Wan*, Identification of MYB Transcription Factors Regulating Theanine Biosynthesis in Tea Plant Using Omics-Based Gene Coexpression Analysis, Journal of Agricultual and Food Chemistry 2020, doi.org/10.1021/acs.jafc.9b06730

Rui Zhang, Yong Ma, Xiaoyi Hu, Ying Chen, Xiaolong He, Ping Wang, Qi Chen, Chi-Tang Ho, Xiaochun Wan, Youhua Zhang and Shihua Zhang*, TeaCoN: a database of gene co-expression network for tea plant (Camellia sinensis), BMC genomics 2020, 21:461(corresponding author)

Guomin Han, Hui Ma, Shenrong Ren, Xueyan Gao, Xiaolong He, Suwen Zhu, Ruining Deng, Shihua Zhang*, Insights into the mechanism of cyanobacteria removal by the algicidal fungi Bjerkandera adusta and Trametes versicolor, 2020, doi.org/10.1002/mbo3.1042 (corresponding author)

Shihua Zhang, Liang Zhang, Yuling Tai, Xuewen Wang, Chi-Tang Ho and Xiaochun Wan*, Gene Discovery of Characteristic Metabolic Pathways in the Tea Plant (Camellia sinensis) Using ‘Omics’-Based Network Approaches:A Future Perspective. Frontiers in plant science, 2018, doi: 10.3389/fpls.2018.00480

Shihua Zhang, Liang Zhang, Yijun Wang, Jian Yang, Mingzhi Liao, Shoudong Bi,Zhongwen Xie, Chi-Tang Ho and Xiaochun Wan*, TBC2target: A Resource of Predicted Target Genes of Tea Bioactive Compounds. Frontiers in plant science, 2018, doi: 10.3389/fpls.2018.00211.

Shihua Zhang*, Hongdong Xuan*, Liang Zhang, Sicong Fu, Yijun Wang, Hua Yang, Yuling Tai, Youhong Song, Jinsong Zhang, Chi-Tang Ho, Shaowen Li and Xiaochun Wan, TBC2health: a database of experimentally validated health-beneficial effects of tea bioactive compounds, Briefings in Bioinformatics 2016, doi: 10.1093/bib/bbw055

Linzhong Zhang, Hongdong Xuan, Yongchun Zuo, Gaojian XuPing Wang, Youhong Song, Shihua Zhang*, Topological characteristics of target genes regulated by abiotic-stress-responsible miRNAs in a rice interactome network, Functional & Integrative Genomics 2016 DOI: 10.1007/S10142-016-0481-4 (corresponding author)

Hongdong Xuan, Linzhong Zhang, Xueshi Liu, Guomin Han, Juan Li, Xin Li, Aiguo Liu, Mingzhi Liao, Shihua Zhang*, PLNlncRbase: a resource for experimentally identified lncRNAs in plants, Gene 2015, 573, 328-332 (corresponding author)

Leijie Li, Liangcai Zhang, Guiyou Liu, Rennan Feng, Lei Yang, Shihua Zhang*, Mingzhi Liao*, and Jinlian Hua*, Synergistic Transcriptional and Post-Transcriptional Regulation of ESC Characteristics by Core Pluripotency Transcription Factors in Protein-Protein Interaction Networks, PLoS ONE 2014 9(8): e105180. doi:10.1371/journal.pone.0105180 (corresponding author)

Hongdong Xuan, Xin Li, Shenrong Ren, Shihua Zhang*, Modular organization of the human disease genes:a text-based network inference, Bioinformation 2015,11(9): 432-436 (corresponding author)

Shihua Zhang, Yi Yue, Liang Sheng, Yunzhi Wu, Guohua Fan, Ao Li, Xiaoyi Hu, Mingzhu ShangGuan and Chaoling Wei*, PASmiR: a literature-curated database for miRNA molecular regulation in plant response to abiotic stress, BMC plant biology 2013, 13 (33), 1-8

Shihua Zhang, Jing Xu, Chaoling Wei*, Sequence periodic pattern of HERV LTRs: A matrix simulation algorithm, Journal of biosciences 2012, 37(1), 1-6

Shihua Zhang, Chunyu Wang, Bo Xi, Xia Li*, Association between tumor necrosis factor-α-308G/A polymorphism and chronic obstructive pulmonary disease: An update, Respirology 2011, 16, 107-115

Shihua Zhang, Chao Wu, Xia Li*, Xi Chen, Wei Jiang, Binsheng Gong, Jiang Li , Yuqing Yan, From phenotype to gene: detecting disease-specific gene functional modules via a text-based disease phenotype network construction, FEBS letters 2010, 584, 3635-3643

Shihua Zhang and Yi Xiao*, Quasiperiodic property in Alu repeats, Physical Review E 2006, 74, 022901-4

Co-author papers:
Yuan Yang, Wenjing Wang, Liangcai Zhang, Shihua Zhang, Guiyou Liu, Yingcui Yu, Mingzhi Liao, Association of single nucleotide polymorphism rs6983267 with the risk of prostate cancer, Oncotarget. 2016 Mar 18. doi: 10.18632/oncotarget.8186.

Yongchun Zuo, Wenxia Su, Shihua Zhang, Shanshan Wang, Chengyan Wu, Lei Yang, Guangpeng Li, Discrimination of membrane transporter protein types using K-nearest neighbor method derived from similarity distance of total diversity measure, Molecular BioSystems 2015 11(3):950-7.

Wei Liu, Xuefeng Bai, Yuejuan Liu, Wei Wang, Junwei Han, Qiuyu Wang, Yanjun Xu, Chunlong Zhang, Shihua Zhang, Xuecang Li, Zhonggui Ren, Jian Zhang, Chunquan Li, Topologically inferring pathway activity toward precise cancer classification via integrating genomic and metabolomic data: prostate cancer as a case, Scientific Reports, 2015, 5:1-15

Liang Zhang, Yuhui Han, Jinjun Shan, Yuhong Liang, Liwei Xu, Shihua Zhang, JunSong Li, Xiaochun Wan, Simultaneous determination of seven catechins in rat plasma by ultra-high performance liquid chromatography tandem mass spectrometry and its application to a pharmacokinetics study, Analytical Methods 2015, 7(22), 9415-9420

Chao Wu, Fan Zhang, Xia Li, Shihua Zhang, Jiang Li, Fei Su, Kongning Li, Yuqing Yan, Composite functional module inference: detecting cooperation between transcriptional regulation and protein interaction by mantel test, BMC Systems Biology 2010, 4:82

Conference papers:
Shihua Zhang, Mingzhi Liao, Xia Li*, The modular property implied in the human disease gene network, The 5th International Conference on Frontier of Computer Science and Technology - Workshop on Bioinformatics and System Biology, Start Page 58, Wuhan, June 4-6, 2010

Shihua Zhang, Chao Wu, Xia Li*, Mingzhi Liao, Yuqing Yan, Sequence periodicity of human endogenous retroviruses, The 5th International Conference on Frontier of Computer Science and Technology - Workshop on Bioinformatics and System Biology, Start Page 47, Wuhan, June 4-6, 2010