| A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism H Lu, F Li, BJ Sánchez, Z Zhu, G Li, I Domenzain, S Marcišauskas, ... Nature communications 10 (1), 3586, 2019 | 342 | 2019 |
| Deep learning-based kcat prediction enables improved enzyme-constrained model reconstruction F Li, L Yuan, H Lu, G Li, Y Chen, MKM Engqvist, EJ Kerkhoven, J Nielsen Nature Catalysis 5 (8), 662-672, 2022 | 231 | 2022 |
| Harnessing the intracellular triacylglycerols for titer improvement of polyketides in Streptomyces W Wang, S Li, Z Li, J Zhang, K Fan, G Tan, G Ai, SM Lam, G Shui, Z Yang, ... Nature biotechnology 38 (1), 76-83, 2020 | 178 | 2020 |
| Integrated isotope-assisted metabolomics and 13C metabolic flux analysis reveals metabolic flux redistribution for high glucoamylase production by Aspergillus niger H Lu, X Liu, M Huang, J Xia, J Chu, Y Zhuang, S Zhang, H Noorman Microbial Cell Factories 14, 1-14, 2015 | 46 | 2015 |
| Comprehensive reconstruction and in silico analysis of Aspergillus niger genome‐scale metabolic network model that accounts for 1210 ORFs H Lu, W Cao, L Ouyang, J Xia, M Huang, J Chu, Y Zhuang, S Zhang, ... Biotechnology and Bioengineering 114 (3), 685-695, 2017 | 42 | 2017 |
| Multi-omics integrative analysis with genome-scale metabolic model simulation reveals global cellular adaptation of Aspergillus niger under industrial enzyme … H Lu, W Cao, X Liu, Y Sui, L Ouyang, J Xia, M Huang, Y Zhuang, S Zhang, ... Scientific reports 8 (1), 14404, 2018 | 41 | 2018 |
| Multiscale models quantifying yeast physiology: towards a whole-cell model H Lu, EJ Kerkhoven, J Nielsen Trends in Biotechnology 40 (3), 291-305, 2022 | 34 | 2022 |
| Comprehensive reconstruction and evaluation of Pichia pastoris genome-scale metabolic model that accounts for 1243 ORFs R Ye, M Huang, H Lu, J Qian, W Lin, J Chu, Y Zhuang, S Zhang Bioresources and Bioprocessing 4, 1-12, 2017 | 32 | 2017 |
| Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection H Lu, F Li, L Yuan, I Domenzain, R Yu, H Wang, G Li, Y Chen, B Ji, ... Molecular Systems Biology 17 (10), e10427, 2021 | 29 | 2021 |
| Improvement of glucoamylase production using axial impellers with low power consumption and homogeneous mass transfer W Tang, A Pan, H Lu, J Xia, Y Zhuang, S Zhang, J Chu, H Noorman Biochemical Engineering Journal 99, 167-176, 2015 | 29 | 2015 |
| Engineering cofactor metabolism for improved protein and glucoamylase production in Aspergillus niger Y Sui, T Schütze, L Ouyang, H Lu, P Liu, X Xiao, J Qi, YP Zhuang, ... Microbial Cell Factories 19, 1-17, 2020 | 26 | 2020 |
| Dependence of fungal characteristics on seed morphology and shear stress in bioreactors H Lu, C Li, W Tang, Z Wang, J Xia, S Zhang, Y Zhuang, J Chu, ... Bioprocess and biosystems engineering 38, 917-928, 2015 | 22 | 2015 |
| Integrated analysis of the yeast NADPH-regulator Stb5 reveals distinct differences in NADPH requirements and regulation in different states of yeast metabolism L Ouyang, P Holland, H Lu, D Bergenholm, J Nielsen FEMS yeast research 18 (8), foy091, 2018 | 21 | 2018 |
| Multi-scale data-driven engineering for biosynthetic titer improvement Z Cao, J Yu, W Wang, H Lu, X Xia, H Xu, X Yang, L Bao, Q Zhang, ... Current Opinion in Biotechnology 65, 205-212, 2020 | 18 | 2020 |
| Improving cytosolic aspartate biosynthesis increases glucoamylase production in Aspergillus niger under oxygen limitation W Cao, G Wang, H Lu, L Ouyang, J Chu, Y Sui, Y Zhuang Microbial Cell Factories 19, 1-14, 2020 | 12 | 2020 |
| HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer L Yuan, H Lu, F Li, J Nielsen, EJ Kerkhoven Briefings in Bioinformatics 24 (2), bbad035, 2023 | 10 | 2023 |
| standard-GEM: standardization of open-source genome-scale metabolic models M Anton, E Almaas, R Benfeitas, S Benito-Vaquerizo, LM Blank, A Dräger, ... bioRxiv, 2023.03. 21.512712, 2023 | 8 | 2023 |
| Heparin mimetics as potential intervention for COVID-19 and their bio-manufacturing L Jiang, T Zhang, H Lu, S Li, K Lv, A Tuffour, L Zhang, K Ding, JP Li, H Li, ... Synthetic and Systems Biotechnology 8 (1), 11-19, 2023 | 7 | 2023 |
| DeepEnzyme: a robust deep learning model for improved enzyme turnover number prediction by utilizing features of protein 3D-structures T Wang, G Xiang, S He, L Su, Y Wang, X Yan, H Lu Briefings in Bioinformatics 25 (5), bbae409, 2024 | 6 | 2024 |
| Yeast9: A consensus yeast metabolic model enables quantitative analysis of cellular metabolism by incorporating big data C Zhang, BJ Sánchez, F Li, CWQ Eiden, WT Scott, UW Liebal, LM Blank, ... bioRxiv, 2023.12. 03.569754, 2023 | 6 | 2023 |
