| Improving saliva shotgun metagenomics by chemical host DNA depletion CA Marotz, JG Sanders, C Zuniga, LS Zaramela, R Knight, K Zengler Microbiome 6, 1-9, 2018 | 257 | 2018 |
| Elucidation of complexity and prediction of interactions in microbial communities C Zuñiga, L Zaramela, K Zengler Microbial biotechnology 10 (6), 1500-1522, 2017 | 136 | 2017 |
| Ten simple rules for writing and sharing computational analyses in Jupyter Notebooks A Rule, A Birmingham, C Zuniga, I Altintas, SC Huang, R Knight, ... PLoS computational biology 15 (7), e1007007, 2019 | 135 | 2019 |
| Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic … C Zuñiga, CT Li, T Huelsman, J Levering, DC Zielinski, BO McConnell, ... Plant physiology 172 (1), 589-602, 2016 | 123 | 2016 |
| Production of poly-β-hydroxybutyrate (PHB) by Methylobacterium organophilum isolated from a methanotrophic consortium in a two-phase partition bioreactor C Zúñiga, M Morales, S Le Borgne, S Revah Journal of hazardous materials 190 (1-3), 876-882, 2011 | 91 | 2011 |
| Advances in metabolic modeling of oleaginous microalgae JD Tibocha-Bonilla, C Zuñiga, RD Godoy-Silva, K Zengler Biotechnology for biofuels 11, 1-15, 2018 | 72 | 2018 |
| Genome-scale metabolic modeling enables in-depth understanding of big data A Passi, JD Tibocha-Bonilla, M Kumar, D Tec-Campos, K Zengler, ... Metabolites 12 (1), 14, 2021 | 70 | 2021 |
| Gut bacteria responding to dietary change encode sialidases that exhibit preference for red meat-associated carbohydrates LS Zaramela, C Martino, F Alisson-Silva, SD Rees, SL Diaz, L Chuzel, ... Nature microbiology 4 (12), 2082-2089, 2019 | 70 | 2019 |
| Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities C Zuñiga, CT Li, G Yu, MM Al-Bassam, T Li, L Jiang, LS Zaramela, ... Nature microbiology 4 (12), 2184-2191, 2019 | 70 | 2019 |
| Unraveling interactions in microbial communities-from co-cultures to microbiomes J Tan, C Zuniga, K Zengler Journal of Microbiology 53, 295-305, 2015 | 70 | 2015 |
| Synthetic microbial communities of heterotrophs and phototrophs facilitate sustainable growth C Zuñiga, T Li, MT Guarnieri, JP Jenkins, CT Li, K Bingol, YM Kim, ... Nature communications 11 (1), 3803, 2020 | 64 | 2020 |
| Predicting Dynamic Metabolic Demands in the Photosynthetic Eukaryote Chlorella vulgaris C Zuñiga, J Levering, MR Antoniewicz, MT Guarnieri, MJ Betenbaugh, ... Plant physiology 176 (1), 450-462, 2018 | 64 | 2018 |
| A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types Y Seif, JM Monk, N Mih, H Tsunemoto, S Poudel, C Zuniga, J Broddrick, ... PLoS computational biology 15 (1), e1006644, 2019 | 52 | 2019 |
| Polyhydroxyalkanoates accumulation by Methylobacterium organophilum CZ-2 during methane degradation using citrate or propionate as cosubstrates C Zuñiga, M Morales, S Revah Bioresource technology 129, 686-689, 2013 | 42 | 2013 |
| Optimization of carbon and energy utilization through differential translational efficiency MM Al-Bassam, JN Kim, LS Zaramela, BP Kellman, C Zuniga, ... Nature communications 9 (1), 4474, 2018 | 39 | 2018 |
| The sum is greater than the parts: exploiting microbial communities to achieve complex functions LS Zaramela, O Moyne, M Kumar, C Zuniga, JD Tibocha-Bonilla, ... Current Opinion in Biotechnology 67, 149-157, 2021 | 33 | 2021 |
| Biotechnology for secure biocontainment designs in an emerging bioeconomy KL Arnolds, LR Dahlin, L Ding, C Wu, J Yu, W Xiong, C Zuniga, Y Suzuki, ... Current Opinion in Biotechnology 71, 25-31, 2021 | 29 | 2021 |
| Creating a synthetic lichen: Mutualistic co-culture of fungi and extracellular polysaccharide-secreting cyanobacterium Nostoc PCC 7413 T Li, L Jiang, Y Hu, JT Paul, C Zuniga, K Zengler, MJ Betenbaugh Algal Research 45, 101755, 2020 | 28 | 2020 |
| Utilizing genome-scale models to optimize nutrient supply for sustained algal growth and lipid productivity CT Li, J Yelsky, Y Chen, C Zuñiga, R Eng, L Jiang, A Shapiro, KW Huang, ... NPJ systems biology and applications 5 (1), 33, 2019 | 28 | 2019 |
| Ten simple rules for reproducible research in Jupyter notebooks A Rule, A Birmingham, C Zuniga, I Altintas, SC Huang, R Knight, ... arXiv preprint arXiv:1810.08055, 2018 | 28 | 2018 |
