| Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v. 3.0 L Heirendt, S Arreckx, T Pfau, SN Mendoza, A Richelle, A Heinken, ... Nature protocols, 1, 2019 | 992 | 2019 |
| Crowdsourced mapping of unexplored target space of kinase inhibitors A Cichońska, B Ravikumar, RJ Allaway, F Wan, S Park, O Isayev, S Li, ... Nature communications 12 (1), 3307, 2021 | 62 | 2021 |
| Model-based dietary optimization for late-stage, levodopa-treated, Parkinson’s disease patients MB Guebila, I Thiele NPJ systems biology and applications 2 (1), 1-8, 2016 | 43 | 2016 |
| GRAND: a database of gene regulatory network models across human conditions M Ben Guebila, CM Lopes-Ramos, D Weighill, AR Sonawane, R Burkholz, ... Nucleic Acids Research 50 (D1), D610-D621, 2022 | 42 | 2022 |
| Toward a Generalizable Framework of Disturbance Ecology Through Crowdsourced Science EB Graham, C Averill, B Bond-Lamberty, JE Knelman, S Krause, ... Frontiers in Ecology and Evolution 9, 76, 2021 | 40 | 2021 |
| Pathogenesis, symptomatology, and transmission of SARS-CoV-2 through analysis of viral genomics and structure HM Rando, AL MacLean, AJ Lee, R Lordan, S Ray, V Bansal, AN Skelly, ... Msystems 6 (5), e00095-21, 2021 | 34 | 2021 |
| Predicting gastrointestinal drug effects using contextualized metabolic models M Ben Guebila, I Thiele PLoS computational biology 15 (6), e1007100, 2019 | 23 | 2019 |
| Identification and Development of Therapeutics for COVID-19 HM Rando, N Wellhausen, S Ghosh, AJ Lee, AA Dattoli, F Hu, JB Byrd, ... Msystems 6 (6), e00233-21, 2021 | 20 | 2021 |
| Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data J Tanevski, T Nguyen, B Truong, N Karaiskos, ME Ahsen, X Zhang, C Shu, ... Life science alliance 3 (11), 2020 | 20 | 2020 |
| Gene regulatory network inference as relaxed graph matching D Weighill, MB Guebila, C Lopes-Ramos, K Glass, J Quackenbush, ... Proceedings of the AAAI Conference on Artificial Intelligence 35 (11), 10263 …, 2021 | 16 | 2021 |
| Regulatory network of PD1 signaling is associated with prognosis in glioblastoma multiforme CM Lopes-Ramos, T Belova, TH Brunner, MB Guebila, D Osorio, ... Cancer Research 81 (21), 5401-5412, 2021 | 15 | 2021 |
| Predicting genotype-specific gene regulatory networks D Weighill, MB Guebila, K Glass, J Quackenbush, J Platig Genome Research 32 (3), 524-533, 2022 | 13 | 2022 |
| Gene targeting in disease networks D Weighill, M Ben Guebila, K Glass, J Platig, JJ Yeh, J Quackenbush Frontiers in Genetics 12, 501, 2021 | 12 | 2021 |
| Global network of computational biology communities: ISCB's Regional Student Groups breaking barriers S Shome, RG Parra, N Fatima, AM Monzon, B Cuypers, Y Moosa, ... F1000Research 8, 2019 | 12 | 2019 |
| SARS-CoV-2 and COVID-19: An evolving review of diagnostics and therapeutics HM Rando, CS Greene, MP Robson, SM Boca, N Wellhausen, R Lordan, ... Manubot, 2021 | 11 | 2021 |
| Dynamic flux balance analysis of whole-body metabolism for type 1 diabetes M Ben Guebila, I Thiele Nature Computational Science 1 (5), 348-361, 2021 | 10 | 2021 |
| DRAGON: determining regulatory associations using graphical models on multi-omic networks KH Shutta, D Weighill, R Burkholz, MB Guebila, DL DeMeo, HU Zacharias, ... Nucleic Acids Research 51 (3), e15-e15, 2023 | 7 | 2023 |
| Pharmacy DL Gal, T Wuliji, LK Matowe, MB Guebila, R Mitura Essential Clinical Global Health, 427, 2014 | 7 | 2014 |
| The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks M Ben Guebila, T Wang, CM Lopes-Ramos, V Fanfani, D Weighill, ... Genome Biology 24 (1), 1-23, 2023 | 6* | 2023 |
| An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks M Ben Guebila, D Weighill, CM Lopes-Ramos, R Burkholz, RT Pop, ... Nature Methods 19 (5), 511-513, 2022 | 6 | 2022 |
John QuackenbushHarvard T.H. Chan School of Public Health, Channing Division of Network Medicine, and Dana-FarberVerified email at hsph.harvard.edu
