Professor | Hongwu Ma | Asia Growth Partners

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Name	Hongwu Ma
Contact Information	ma_hw@tib.cas.cn
Language ability	Chinese, English
Province	Tianjin

Upload Avatar (500 x 500)

Name

Hongwu Ma

Contact Information

ma_hw@tib.cas.cn

Language ability

Chinese, English

Province

Tianjin

University/Lab Affiliation and Title	University of Chinese Academy of Sciences
Faculty	Life Sciences
Academic Background & Achievements	1997-09--2001-03 PhD: School of Chemical Engineering, Tianjin University 1993-09--1996-03 Master's: School of Chemical Engineering, Tianjin University 1989-09--1993-07 Bachelor's: Tianjin University
Awards	2023: Tianjin Natural Science Award, Special Prize 2014: Thomson Reuters Highly Cited Scientist Award

University/Lab Affiliation and Title

University of Chinese Academy of Sciences

Faculty

Life Sciences

Academic Background & Achievements

1997-09--2001-03 PhD: School of Chemical Engineering, Tianjin University
1993-09--1996-03 Master's: School of Chemical Engineering, Tianjin University
1989-09--1993-07 Bachelor's: Tianjin University

Awards

2023: Tianjin Natural Science Award, Special Prize
2014: Thomson Reuters Highly Cited Scientist Award

Areas of Focus	Systems Biology Synthetic Biology Computational Biology
Publications	Construction of an enzyme-constrained metabolic network model for Myceliophthora thermophila using machine learning-based k(cat) data, Wang, Y.; Mao, Z.; Dong, J.; Zhang, P.; Gao, Q.; Liu, D.; Tian, C.; Ma, H., 2024 REME: an integrated platform for reaction enzyme mining and evaluation, Shi, Z.; Wang, D.; Li, Y.; Deng, R.; Lin, J.; Liu, C.; Li, H.; Wang, R.; Zhao, M.; Mao, Z.; Yuan, Q.; Liao, X.; Ma, H., 2024 ECMpy 2.0: A Python package for automated construction and analysis of enzyme-constrained models, Mao, Z.; Niu, J.; Zhao, J.; Huang, Y.; Wu, K.; Yun, L.; Guan, J.; Yuan, Q.; Liao, X.; Wang, Z.; Ma, H., 2024 Omics data analysis reveals the system-level constraint on cellular amino acid composition, Huang, Y.; Mao, Z.; Zhang, Y.; Zhao, J.; Luan, X.; Wu, K.; Yun, L.; Yu, J.; Shi, Z.; Liao, X.; Ma, H., 2024 DeepSub: Utilizing Deep Learning for Predicting the Number of Subunits in Homo-Oligomeric Protein Complexes, Deng, R.; Wu, K.; Lin, J.; Wang, D.; Huang, Y.; Li, Y.; Shi, Z.; Zhang, Z.; Wang, Z.; Mao, Z.; Liao, X.; Ma, H., 2024 Genome sequencing and metabolic network reconstruction of a novel sulfur-oxidizing bacterium Acidithiobacillus Ameehan, Wu, P.; Yuan, Q.; Cheng, T.; Han, Y.; Zhao, W.; Liao, X.; Wang, L.; Cai, J.; He, Q.; Guo, Y.; Zhang, X.; Lu, F.; Wang, J.; Ma, H.; Huang, Z., 2023 Reconstruction and metabolic profiling of the genome-scale metabolic network model of Pseudomonas stutzeri A1501, Yuan, Q.; Wei, F.; Deng, X.; Li, A.; Shi, Z.; Mao, Z.; Li, F.; Ma, H., 2023 Elucidating the impact of in vitro cultivation on Nicotiana tabacum metabolism through combined in silico modeling and multiomics analysis, Yu, J.; Wang, X.; Yuan, Q.; Shi, J.; Cai, J.; Li, Z.; Ma, H., 2023 Independent component analysis of Corynebacterium glutamicum transcriptomes reveals its transcriptional regulatory network, Zhao, J.; Sun, X.; Mao, Z.; Zheng, Y.; Geng, Z.; Zhang, Y.; Ma, H.; Wang, Z., 2023 Improving pathway prediction accuracy of constraints-based metabolic network models by treating enzymes as microcompartments, Yang, X.; Mao, Z.; Huang, J.; Wang, R.; Dong, H.; Zhang, Y.; Ma, H., 2023 In silico prediction of mutation sites for anthranilate synthase from Serratia marcesens to deregulate tryptophan feedback inhibition, Naz, S.; Liu, P.; Liu, C.; Cui, M.; Ma, H., 2023 Design, Evaluation, and Implementation of Synthetic Isopentyldiol Pathways in Escherichia coli, Liu, Y.; Chen, L.; Liu, P.; Yuan, Q.; Ma, C.; Wang, W.; Zhang, C.; Ma, H.; Zeng, A., 2023 Protein engineering and iterative multimodule optimization for vitamin B(6) production in Escherichia coli, Liu, L.; Li, J.; Gai, Y.; Tian, Z.; Wang, Y.; Wang, T.; Liu, P.; Yuan, Q.; Ma, H.; Lee, S. Y.; Zhang, D., 2023 Insight into the phylogeny and metabolic divergence of Monascus species (M. pilosus, M. ruber, and M. purpureus) at the genome level, Zhang, Z.; Cui, M.; Chen, P.; Li, J.; Mao, Z.; Mao, Y.; Li, Z.; Guo, Q.; Wang, C.; Liao, X.; Liu, H., 2023 pUGTdb: A comprehensive database of plant UDP-dependent glycosyltransferases, Liu, Y.; Wang, Q.; Liu, X.; Cheng, J.; Zhang, L.; Chu, H.; Wang, R.; Li, H.; Chang, H.; Ahmed, N.; Wang, Z.; Liao, X.; Jiang, H., 2023 Construction and application of high-quality genome-scale metabolic model of Zymomonas mobilis to guide rational design of microbial cell factories, Wu, Y.; Yuan, Q.; Yang, Y.; Liu, D.; Yang, S.; Ma, H., 2023 Insight into de-regulation of amino acid feedback inhibition: a focus on structure analysis method, Naz, S.; Liu, P.; Farooq, U.; Ma, H., 2023 CAVE: a cloud-based platform for analysis and visualization of metabolic pathways, 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 Engineering Escherichia coli for Poly-β-hydroxybutyrate Production from Methanol, Wang, J.; Chen, Z.; Deng, X.; Yuan, Q.; Ma, H., 2023 Enzyme Commission Number Prediction and Benchmarking with Hierarchical Dual-core Multitask Learning Framework, Shi, Z.; Deng, R.; Yuan, Q.; Mao, Z.; Wang, R.; Li, H.; Liao, X.; Ma, H., 2023 Designing gene manipulation schedules for high throughput parallel construction of objective strains, Cai, J.; Liao, X.; Mao, Y.; Wang, R.; Li, H.; Ma, H., 2023 SCP4ssd: A Serverless Platform for Nucleotide Sequence Synthesis Difficulty Prediction Using an AutoML Model, Zhang, J.; Ren, S.; Shi, Z.; Wang, R.; Li, H.; Tian, H.; Feng, M.; Liao, X.; Ma, H., 2023 ecBSU1: A Genome-Scale Enzyme-Constrained Model of Bacillus subtilis Based on the ECMpy Workflow, Wu, K.; Mao, Z.; Mao, Y.; Niu, J.; Cai, J.; Yuan, Q.; Yun, L.; Liao, X.; Wang, Z.; Ma, H., 2023 Complete Depolymerization of PET Wastes by an Evolved PET Hydrolase from Directed Evolution, Shi, L.; Liu, P.; Tan, Z.; Zhao, W.; Gao, J.; Gu, Q.; Ma, H.; Liu, H.; Zhu, L., 2023 Directed evolution of linker helix as an efficient strategy for engineering LysR-type transcriptional regulators as whole-cell biosensors, Pu, W.; Chen, J.; Liu, P.; Shen, J.; Cai, N.; Liu, B.; Lei, Y.; Wang, L.; Ni, X.; Zhang, J.; Liu, J.; Zhou, Y.; Zhou, W.; Ma, H.; Wang, Y.; Zheng, P.; Sun, J., 2023 Construction and analysis of an integrated biological network of Escherichia coli, Mao, Z.; Huang, T.; Yuan, Q.; Ma, H., 2022 CRISPR-assisted rational flux-tuning and arrayed CRISPRi screening of an l-proline exporter for l-proline hyperproduction, Liu, J.; Liu, M.; Shi, T.; Sun, G.; Gao, N.; Zhao, X.; Guo, X.; Ni, X.; Yuan, Q.; Feng, J.; Liu, Z.; Guo, Y.; Chen, J.; Wang, Y.; Zheng, P.; Sun, J., 2022 Protein Engineering of Glucosylglycerol Phosphorylase Facilitating Efficient and Highly Regio- and Stereoselective Glycosylation of Polyols in a Synthetic System, Zhang, T.; Liu, P.; Wei, H.; Sun, X.; Zeng, Y.; Zhang, X.; Cai, Y.; Cui, M.; Ma, H.; Liu, W.; Sun, Y.; Yang, J., 2022 Efficient O-Glycosylation of Triterpenes Enabled by Protein Engineering of Plant Glycosyltransferase UGT74AC1, Li, J.; Yang, J.; Mu, S.; Shang, N.; Liu, C.; Zhu, Y.; Cai, Y.; Liu, P.; Lin, J.; Liu, W.; Sun, Y.; Ma, Y., 2020 Going Beyond the Local Catalytic Activity Space of Chitinase Using a Simulation-Based Iterative Saturation Mutagenesis Strategy, Li, J.; Wang, S.; Liu, C.; Li, Y.; Wei, Y.; Fu, G.; Liu, P.; Ma, H.; Huang, D.; Lin, J.; Zhang, D., 2022 Enzymatic DNA Synthesis by Engineering Terminal Deoxynucleotidyl Transferase, Lu, X.; Li, J.; Li, C.; Lou, Q.; Peng, K.; Cai, B.; Liu, Y.; Yao, Y.; Lu, L.; Tian, Z.; Ma, H.; Wang, W.; Cheng, J.; Guo, X.; Jiang, H.; Ma, Y., 2022 Rewiring the native methanol assimilation metabolism by incorporating the heterologous ribulose monophosphate cycle into Methylorubrum extorquens, Yuan, X. J.; Chen, W. J.; Ma, Z. X.; Yuan, Q. Q.; Zhang, M.; He, L.; Mo, X. H.; Zhang, C.; Zhang, C. T.; Wang, M. Y.; Xing, X. H.; Yang, S., 2021 Engineering substrate specificity of HAD phosphatases and multienzyme systems development for the thermodynamic-driven manufacturing sugars, Tian, C.; Yang, J.; Liu, C.; Chen, P.; Zhang, T.; Men, Y.; Ma, H.; Sun, Y.; Ma, Y., 2022 Base editor enables rational genome-scale functional screening for enhanced industrial phenotypes in Corynebacterium glutamicum, Liu, Y.; Wang, R.; Liu, J.; Lu, H.; Li, H.; Wang, Y.; Ni, X.; Li, J.; Guo, Y.; Ma, H.; Liao, X.; Wang, M., 2022 Reconstruction and

Areas of Focus

Systems Biology
Synthetic Biology
Computational Biology

Publications

Construction of an enzyme-constrained metabolic network model for Myceliophthora thermophila using machine learning-based k(cat) data, Wang, Y.; Mao, Z.; Dong, J.; Zhang, P.; Gao, Q.; Liu, D.; Tian, C.; Ma, H., 2024
REME: an integrated platform for reaction enzyme mining and evaluation, Shi, Z.; Wang, D.; Li, Y.; Deng, R.; Lin, J.; Liu, C.; Li, H.; Wang, R.; Zhao, M.; Mao, Z.; Yuan, Q.; Liao, X.; Ma, H., 2024
ECMpy 2.0: A Python package for automated construction and analysis of enzyme-constrained models, Mao, Z.; Niu, J.; Zhao, J.; Huang, Y.; Wu, K.; Yun, L.; Guan, J.; Yuan, Q.; Liao, X.; Wang, Z.; Ma, H., 2024
Omics data analysis reveals the system-level constraint on cellular amino acid composition, Huang, Y.; Mao, Z.; Zhang, Y.; Zhao, J.; Luan, X.; Wu, K.; Yun, L.; Yu, J.; Shi, Z.; Liao, X.; Ma, H., 2024
DeepSub: Utilizing Deep Learning for Predicting the Number of Subunits in Homo-Oligomeric Protein Complexes, Deng, R.; Wu, K.; Lin, J.; Wang, D.; Huang, Y.; Li, Y.; Shi, Z.; Zhang, Z.; Wang, Z.; Mao, Z.; Liao, X.; Ma, H., 2024
Genome sequencing and metabolic network reconstruction of a novel sulfur-oxidizing bacterium Acidithiobacillus Ameehan, Wu, P.; Yuan, Q.; Cheng, T.; Han, Y.; Zhao, W.; Liao, X.; Wang, L.; Cai, J.; He, Q.; Guo, Y.; Zhang, X.; Lu, F.; Wang, J.; Ma, H.; Huang, Z., 2023
Reconstruction and metabolic profiling of the genome-scale metabolic network model of Pseudomonas stutzeri A1501, Yuan, Q.; Wei, F.; Deng, X.; Li, A.; Shi, Z.; Mao, Z.; Li, F.; Ma, H., 2023
Elucidating the impact of in vitro cultivation on Nicotiana tabacum metabolism through combined in silico modeling and multiomics analysis, Yu, J.; Wang, X.; Yuan, Q.; Shi, J.; Cai, J.; Li, Z.; Ma, H., 2023
Independent component analysis of Corynebacterium glutamicum transcriptomes reveals its transcriptional regulatory network, Zhao, J.; Sun, X.; Mao, Z.; Zheng, Y.; Geng, Z.; Zhang, Y.; Ma, H.; Wang, Z., 2023
Improving pathway prediction accuracy of constraints-based metabolic network models by treating enzymes as microcompartments, Yang, X.; Mao, Z.; Huang, J.; Wang, R.; Dong, H.; Zhang, Y.; Ma, H., 2023
In silico prediction of mutation sites for anthranilate synthase from Serratia marcesens to deregulate tryptophan feedback inhibition, Naz, S.; Liu, P.; Liu, C.; Cui, M.; Ma, H., 2023
Design, Evaluation, and Implementation of Synthetic Isopentyldiol Pathways in Escherichia coli, Liu, Y.; Chen, L.; Liu, P.; Yuan, Q.; Ma, C.; Wang, W.; Zhang, C.; Ma, H.; Zeng, A., 2023
Protein engineering and iterative multimodule optimization for vitamin B(6) production in Escherichia coli, Liu, L.; Li, J.; Gai, Y.; Tian, Z.; Wang, Y.; Wang, T.; Liu, P.; Yuan, Q.; Ma, H.; Lee, S. Y.; Zhang, D., 2023
Insight into the phylogeny and metabolic divergence of Monascus species (M. pilosus, M. ruber, and M. purpureus) at the genome level, Zhang, Z.; Cui, M.; Chen, P.; Li, J.; Mao, Z.; Mao, Y.; Li, Z.; Guo, Q.; Wang, C.; Liao, X.; Liu, H., 2023
pUGTdb: A comprehensive database of plant UDP-dependent glycosyltransferases, Liu, Y.; Wang, Q.; Liu, X.; Cheng, J.; Zhang, L.; Chu, H.; Wang, R.; Li, H.; Chang, H.; Ahmed, N.; Wang, Z.; Liao, X.; Jiang, H., 2023
Construction and application of high-quality genome-scale metabolic model of Zymomonas mobilis to guide rational design of microbial cell factories, Wu, Y.; Yuan, Q.; Yang, Y.; Liu, D.; Yang, S.; Ma, H., 2023
Insight into de-regulation of amino acid feedback inhibition: a focus on structure analysis method, Naz, S.; Liu, P.; Farooq, U.; Ma, H., 2023
CAVE: a cloud-based platform for analysis and visualization of metabolic pathways, 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
Engineering Escherichia coli for Poly-β-hydroxybutyrate Production from Methanol, Wang, J.; Chen, Z.; Deng, X.; Yuan, Q.; Ma, H., 2023
Enzyme Commission Number Prediction and Benchmarking with Hierarchical Dual-core Multitask Learning Framework, Shi, Z.; Deng, R.; Yuan, Q.; Mao, Z.; Wang, R.; Li, H.; Liao, X.; Ma, H., 2023
Designing gene manipulation schedules for high throughput parallel construction of objective strains, Cai, J.; Liao, X.; Mao, Y.; Wang, R.; Li, H.; Ma, H., 2023
SCP4ssd: A Serverless Platform for Nucleotide Sequence Synthesis Difficulty Prediction Using an AutoML Model, Zhang, J.; Ren, S.; Shi, Z.; Wang, R.; Li, H.; Tian, H.; Feng, M.; Liao, X.; Ma, H., 2023
ecBSU1: A Genome-Scale Enzyme-Constrained Model of Bacillus subtilis Based on the ECMpy Workflow, Wu, K.; Mao, Z.; Mao, Y.; Niu, J.; Cai, J.; Yuan, Q.; Yun, L.; Liao, X.; Wang, Z.; Ma, H., 2023
Complete Depolymerization of PET Wastes by an Evolved PET Hydrolase from Directed Evolution, Shi, L.; Liu, P.; Tan, Z.; Zhao, W.; Gao, J.; Gu, Q.; Ma, H.; Liu, H.; Zhu, L., 2023
Directed evolution of linker helix as an efficient strategy for engineering LysR-type transcriptional regulators as whole-cell biosensors, Pu, W.; Chen, J.; Liu, P.; Shen, J.; Cai, N.; Liu, B.; Lei, Y.; Wang, L.; Ni, X.; Zhang, J.; Liu, J.; Zhou, Y.; Zhou, W.; Ma, H.; Wang, Y.; Zheng, P.; Sun, J., 2023
Construction and analysis of an integrated biological network of Escherichia coli, Mao, Z.; Huang, T.; Yuan, Q.; Ma, H., 2022
CRISPR-assisted rational flux-tuning and arrayed CRISPRi screening of an l-proline exporter for l-proline hyperproduction, Liu, J.; Liu, M.; Shi, T.; Sun, G.; Gao, N.; Zhao, X.; Guo, X.; Ni, X.; Yuan, Q.; Feng, J.; Liu, Z.; Guo, Y.; Chen, J.; Wang, Y.; Zheng, P.; Sun, J., 2022
Protein Engineering of Glucosylglycerol Phosphorylase Facilitating Efficient and Highly Regio- and Stereoselective Glycosylation of Polyols in a Synthetic System, Zhang, T.; Liu, P.; Wei, H.; Sun, X.; Zeng, Y.; Zhang, X.; Cai, Y.; Cui, M.; Ma, H.; Liu, W.; Sun, Y.; Yang, J., 2022
Efficient O-Glycosylation of Triterpenes Enabled by Protein Engineering of Plant Glycosyltransferase UGT74AC1, Li, J.; Yang, J.; Mu, S.; Shang, N.; Liu, C.; Zhu, Y.; Cai, Y.; Liu, P.; Lin, J.; Liu, W.; Sun, Y.; Ma, Y., 2020
Going Beyond the Local Catalytic Activity Space of Chitinase Using a Simulation-Based Iterative Saturation Mutagenesis Strategy, Li, J.; Wang, S.; Liu, C.; Li, Y.; Wei, Y.; Fu, G.; Liu, P.; Ma, H.; Huang, D.; Lin, J.; Zhang, D., 2022
Enzymatic DNA Synthesis by Engineering Terminal Deoxynucleotidyl Transferase, Lu, X.; Li, J.; Li, C.; Lou, Q.; Peng, K.; Cai, B.; Liu, Y.; Yao, Y.; Lu, L.; Tian, Z.; Ma, H.; Wang, W.; Cheng, J.; Guo, X.; Jiang, H.; Ma, Y., 2022
Rewiring the native methanol assimilation metabolism by incorporating the heterologous ribulose monophosphate cycle into Methylorubrum extorquens, Yuan, X. J.; Chen, W. J.; Ma, Z. X.; Yuan, Q. Q.; Zhang, M.; He, L.; Mo, X. H.; Zhang, C.; Zhang, C. T.; Wang, M. Y.; Xing, X. H.; Yang, S., 2021
Engineering substrate specificity of HAD phosphatases and multienzyme systems development for the thermodynamic-driven manufacturing sugars, Tian, C.; Yang, J.; Liu, C.; Chen, P.; Zhang, T.; Men, Y.; Ma, H.; Sun, Y.; Ma, Y., 2022
Base editor enables rational genome-scale functional screening for enhanced industrial phenotypes in Corynebacterium glutamicum, Liu, Y.; Wang, R.; Liu, J.; Lu, H.; Li, H.; Wang, Y.; Ni, X.; Li, J.; Guo, Y.; Ma, H.; Liao, X.; Wang, M., 2022
Reconstruction and

Cell Model Construction Metabolic Network Pathway Design Enzyme Function Prediction Deep Learning Protein Engineering Synthetic Pathways Metabolic Engineering Bioinformatics Ai In Biology

Guohui Chuai - Tongji University

Ruilian Yao - Shanghai Jiao Tong University

Yudong Cai - Shanghai University

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