在Nucleic Acids Research, Advanced Science, Metabolic Engineering，Research，ACS Synthetic Biology和Microbial Cell Factories 等高水平期刊中发表 20多篇研究性论文，并申请了3项软件著作权。
论文
1. Mao, Z.#, Yuan, Q.#, Li, H.#, Zhang, Y., Huang, Y., Yang, C., Wang, R., Yang, Y., Wu, Y., Yang, S., Liao, X.*, Ma, H.* (2023) CAVE: a cloud-based platform for analysis and visualization of metabolic pathways. Nucleic Acids Research, 51, W70-W77.
2. Mao, Z.#, Wang, R.#, Li, H.#, Huang, Y., Zhang, Q., Liao, X.* and Ma, H.* (2022) ERMer: a serverless platform for navigating, analyzing, and visualizing Escherichia coli regulatory landscape through graph database. Nucleic Acids Research, 50, W298-W304.
3. Yang, X.#, Mao, Z.#, Zhao, X., Wang, R., Zhang, P., Cai, J., Xue, C. and Ma, H.* (2021) Integrating thermodynamic and enzymatic constraints into genome-scale metabolic models. Metabolic Engineering, 67, 133-144.
4. Wu, K.#, Mao, Z.#, Mao, Y., Niu, J., Cai, J., Yuan, Q., Yun, L., Liao, X., Wang, Z.* and Ma, H*. (2023) ecBSU1: A Genome-Scale Enzyme-Constrained Model of Bacillus subtilis Based on the ECMpy Workflow. Microorganisms, 11, 178.
5. Niu, J., Mao, Z.*, Mao, Y., Wu, K., Shi, Z., Yuan, Q., Cai, J. and Ma, H.* (2022) Construction and Analysis of an Enzyme-Constrained Metabolic Model of Corynebacterium glutamicum. Biomolecules, 12, 1499.
6. Mao, Z.#, Zhao, X.#, Yang, X., Zhang, P., Du, J., Yuan, Q. and Ma, H.* (2022) ECMpy, a Simplified Workflow for Constructing Enzymatic Constrained Metabolic Network Model. Biomolecules, 12, 65.
7. Mao, Z.#, Yang, P.#, Liu, H.#, Mao, Y., Lei, Y., Hou, D., Ma, H.*, Liao, X.* and Jiang, W*. (2022) Whole-Genome Sequencing and Analysis of the White-Rot Fungus Ceriporia lacerata Reveals Its Phylogenetic Status and the Genetic Basis of Lignocellulose Degradation and Terpenoid Synthesis. Frontiers in Microbiology, 13, 880946.
8. Mao, Z., Huang, T., Yuan, Q. and Ma, H.* (2021) Construction and analysis of an integrated biological network of Escherichia coli. Systems Microbiology and Biomanufacturing, 2, 165-176.
9. 袁倩倩#, 毛志涛#, 杨雪, 廖小平, 马红武*. (2022) 数字细胞模型的研究及应用. 生物工程学报, 38, 4146-4161.
10. Yang, X., Mao, Z., Huang, J., Wang, R., Dong, H., Zhang, Y.* and Ma, H.* (2023) Improving pathway prediction accuracy of constraints-based metabolic network models by treating enzymes as microcompartments. Synthetic and Systems Biotechnology, 8, 597-605.
11. Zhao, J.#, Sun, X.#, Mao, Z., Zheng, Y., Geng, Z., Zhang, Y., Ma, H.* and Wang, Z.* (2023) Independent component analysis of Corynebacterium glutamicum transcriptomes reveals its transcriptional regulatory network. Microbiological Research, 276, 127485.
12. 杨雪#, 张培基#, 毛志涛, 赵欣, 王若宇, 蔡敬一, 王智文*, 马红武*. (2022) 多约束代谢网络模型的研究进展. 生物工程学报, 38, 531-545.
13. Gao, Y., Yuan, Q., Mao, Z., Liu, H.* and Ma, H.* (2021) Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis. BMC Microbiology, 21, 292.
14. Yun, L., Wu, T., Mao, Z., Li, W., Zhang, M.* and Sun, X.* (2020) A novel wheat germ polysaccharide: Structural characterization, potential antioxidant activities and mechanism. International Journal of Biological Macromolecules, 165, 1978-1987.
15. Shi, Z., Deng, R., Yuan, Q., Mao, Z., Wang, R., Li, H., Liao, X.* and Ma, H.* (2023) Enzyme Commission Number Prediction and Benchmarking with Hierarchical Dual-core Multitask Learning Framework. Research, 6, 0153.
16. 高雅杰, 袁倩倩, 杨雪, 毛志涛, 余文童, 刘浩, Igor, G., 马红武*. (2022) 基于图论的代谢网络中流通代谢物处理新方法. 生物工程学报, 38, 1554-1564.
17. Zhang, Z., Cui, M., Chen, P., Li, J., Mao, Z., Mao, Y., Li, Z., Guo, Q., Wang, C., Liao, X. et al. (2023) Insight into the phylogeny and metabolic divergence of Monascus species (M. pilosus, M. ruber, and M. purpureus) at the genome level. Frontiers in Microbiology, 14, 1199144.
18. Yuan, Q., Wei, F., Deng, X., Li, A., Shi, Z., Mao, Z., Li, F. and Ma, H.* (2023) Reconstruction and metabolic profiling of the genome-scale metabolic network model of Pseudomonas stutzeri A1501. Synthetic and Systems Biotechnology, 8, 688-696.
19. Wang, P., Zhao, D., Li, J., Su, J., Zhang, C., Li, S., Fan, F., Dai, Z., Liao, X., Mao, Z., Bi, C.*，
Zhang, X*. (2023) Artificial Diploid Escherichia coli by a CRISPR Chromosome-Doubling Technique. Advanced Science, 10, e2205855.
20. Zhang, H.#, Liu, H.#, Shu, L., Xu, H., Cheng, Y., Mao, Z., Liu, B., Liao, X.* and Huang, D.* (2022) Metabolomics Analysis Coupled with Weighted Gene Co-Expression Network Analysis Unravels the Associations of Tricarboxylic Acid Cycle-Intermediates with Edible Pigments Produced by Monascus purpureus (Hong Qu). Foods, 11, 2168.
21. Su, J.#, Wang, P.#, Li, J.#, Zhao, D., Li, S., Fan, F., Dai, Z., Liao, X., Mao, Z., Zhang, C. Zhang, C.*, Bi, C.*, Zhang, X.* (2022) A CRISPR-based chromosomal-separation technique for Escherichia coli. Microbial Cell Factories, 21, 235.
22. Shi, Z., Liu, P., Liao, X., Mao, Z., Zhang, J., Wang, Q., Sun, J., Ma, H.* and Ma, Y.* (2022) Data-Driven Synthetic Cell Factories Development for Industrial Biomanufacturing. BioDesign Research, 2022, 9898461.
23. Ding, D., Bai, D., Li, J., Mao, Z., Zhu, Y., Liu, P., Lin, J., Ma, H. and Zhang, D.* (2021) Analyzing the genetic characteristics of a tryptophan-overproducing Escherichia coli. Bioprocess and Biosystems Engineering, 44, 1685-1697.
