| Machine and deep learning meet genome-scale metabolic modeling G Zampieri, S Vijayakumar, E Yaneske, C Angione PLoS computational biology 15 (7), e1007084, 2019 | 283 | 2019 |
| A mechanism-aware and multiomic machine-learning pipeline characterizes yeast cell growth C Culley, S Vijayakumar, G Zampieri, C Angione Proceedings of the National Academy of Sciences 117 (31), 18869-18879, 2020 | 84 | 2020 |
| Revealing metabolic mechanisms of interaction in the anaerobic digestion microbiome by flux balance analysis A Basile, S Campanaro, A Kovalovszki, G Zampieri, A Rossi, I Angelidaki, ... Metabolic Engineering 62, 138-149, 2020 | 61 | 2020 |
| Integrating metagenomic binning with flux balance analysis to unravel syntrophies in anaerobic CO2 methanation N De Bernardini, A Basile, G Zampieri, A Kovalovszki, B De Diego Diaz, ... Microbiome 10 (1), 117, 2022 | 51 | 2022 |
| Metatranscriptomics-guided genome-scale metabolic modeling of microbial communities G Zampieri, S Campanaro, C Angione, L Treu Cell Reports Methods 3 (1), 2023 | 44 | 2023 |
| Cupriavidus necator as a platform for PHA production: An overview of strains, metabolism, and modeling approaches MS Morlino, RS García, F Savio, G Zampieri, T Morosinotto, L Treu, ... Biotechnology Advances, 108264, 2023 | 43 | 2023 |
| Integrating genome-scale metabolic modelling and transfer learning for human gene regulatory network reconstruction G Pio, P Mignone, G Magazzù, G Zampieri, M Ceci, C Angione Bioinformatics 38 (2), 487-493, 2022 | 36 | 2022 |
| KEMET–A python tool for KEGG Module evaluation and microbial genome annotation expansion M Palù, A Basile, G Zampieri, L Treu, A Rossi, MS Morlino, S Campanaro Computational and Structural Biotechnology Journal 20, 1481-1486, 2022 | 28 | 2022 |
| Multimodal regularized linear models with flux balance analysis for mechanistic integration of omics data G Magazzù, G Zampieri, C Angione Bioinformatics 37 (20), 3546-3552, 2021 | 28 | 2021 |
| Scuba: scalable kernel-based gene prioritization G Zampieri, DV Tran, M Donini, N Navarin, F Aiolli, A Sperduti, G Valle BMC bioinformatics 19, 1-12, 2018 | 26 | 2018 |
| Setup and validation of a targeted next-generation sequencing approach for the diagnosis of lysosomal storage disorders A Zanetti, F D'Avanzo, L Bertoldi, G Zampieri, E Feltrin, F De Pascale, ... The Journal of Molecular Diagnostics 22 (4), 488-502, 2020 | 24 | 2020 |
| Adaptation of anaerobic digestion microbial communities to high ammonium levels: insights from strain-resolved metagenomics L Bucci, G Ghiotto, G Zampieri, R Raga, L Favaro, L Treu, S Campanaro Environmental Science & Technology 58 (1), 580-590, 2023 | 18 | 2023 |
| Genome‐scale metabolic modelling of SARS‐CoV‐2 in cancer cells reveals an increased shift to glycolytic energy production E Yaneske, G Zampieri, L Bertoldi, G Benvenuto, C Angione FEBS letters 595 (18), 2350-2365, 2021 | 18 | 2021 |
| A unified compendium of prokaryotic and viral genomes from over 300 anaerobic digestion microbiomes VB Centurion, A Rossi, E Orellana, G Ghiotto, B Kakuk, MS Morlino, ... Environmental Microbiome 19 (1), 1, 2024 | 15 | 2024 |
| Multi-dimensional experimental and computational exploration of metabolism pinpoints complex probiotic interactions G Zampieri, G Efthimiou, C Angione Metabolic Engineering 76, 120-132, 2023 | 12 | 2023 |
| Strain-resolved metagenomics approaches applied to biogas upgrading G Ghiotto, G Zampieri, S Campanaro, L Treu Environmental Research 240, 117414, 2024 | 11 | 2024 |
| Clinical stratification improves the diagnostic accuracy of small omics datasets within machine learning and genome-scale metabolic modelling methods G Magazzù, G Zampieri, C Angione Computers in Biology and Medicine 151, 106244, 2022 | 11 | 2022 |
| A poly-omics machine-learning method to predict metabolite production in CHO cells G Zampieri, M Coggins, G Valle, C Angione 2nd International Electronic Conference of Metabolomics, 2017 | 11 | 2017 |
| Modelling of microbial interactions in anaerobic digestion: From black to glass box A Basile, G Zampieri, A Kovalovszki, B Karkaria, L Treu, KR Patil, ... Current Opinion in Microbiology 75, 102363, 2023 | 10 | 2023 |
| Metabolic and enzymatic engineering strategies for polyethylene terephthalate degradation and valorization A Satta, G Zampieri, G Loprete, S Campanaro, L Treu, E Bergantino Reviews in Environmental Science and Bio/Technology, 1-33, 2024 | 9 | 2024 |
