| libRoadRunner: a high performance SBML simulation and analysis library ET Somogyi, JM Bouteiller, JA Glazier, M König, JK Medley, MH Swat, ... Bioinformatics 31 (20), 3315-3321, 2015 | 139 | 2015 |
| Learning everywhere: Pervasive machine learning for effective high-performance computation G Fox, JA Glazier, JCS Kadupitiya, V Jadhao, M Kim, J Qiu, JP Sluka, ... 2019 IEEE International Parallel and Distributed Processing Symposium …, 2019 | 54 | 2019 |
| A molecular dynamics study of loop fluctuation in human papillomavirus type 16 virus-like particles: a possible indicator of immunogenicity H Joshi, S Cheluvaraja, E Somogyi, DR Brown, P Ortoleva Vaccine 29 (51), 9423-9430, 2011 | 29 | 2011 |
| Learning Everywhere: Pervasive machine learning for effective High-Performance computation: Application background G Fox, JA Glazier, JCS Kadupitiya, V Jadhao, M Kim, J Qiu, JP Sluka, ... Technical report, Indiana University, 2019 | 8 | 2019 |
| ProtoMD: A prototyping toolkit for multiscale molecular dynamics E Somogyi, A Abi Mansour, PJ Ortoleva Computer Physics Communications 202, 337-350, 2016 | 8 | 2016 |
| libRoadRunner: a high performance SBML compliant simulator ET Somogyi, MT Karlsson, M Swat, M Galdzicki, HM Sauro bioRxiv, 001230, 2013 | 7 | 2013 |
| A modeling and simulation language for biological cells with coupled mechanical and chemical processes E Somogyi, JA Glazier Proceedings of the Symposium on Theory of Modeling & Simulation, 14:1--14:12, 2017 | 4 | 2017 |
| Maximizing predictability of a bottom-up complex multi-scale model through systematic validation and multi-objective multi-level optimization JMC Bouteiller, Z Feng, A Onopa, M Huang, EY Hu, E Somogyi, M Baudry, ... 2015 7th International IEEE/EMBS Conference on Neural Engineering (NER), 300-303, 2015 | 3 | 2015 |
| A dynamic non-manifold mesh data structure to represent biological materials E Somogyi Journal of WSCG 26, 21, 2018 | 2 | 2018 |
| Formalizing knowledge in multi-scale agent-based simulations E Somogyi, JP Sluka, JA Glazier Proceedings of the ACM/IEEE 19th International Conference on Model Driven …, 2016 | 2 | 2016 |
| Towards a multi-scale agent-based programming language methodology E Somogyi, A Hagar, JA Glazier 2016 Winter Simulation Conference (WSC), 1230-1240, 2016 | 1 | 2016 |
| Real-Time Interactive Modeling and Simulation in Biological Physics and Active Matter with Mechanica ET Somogyi, J Coulter, F Sun, HM Sauro, JA Glazier arXiv preprint arXiv:2105.02476, 2021 | | 2021 |
| DMS: A Package for Multiscale Molecular Dynamics E Somogyi, AA Mansour, PJ Ortoleva | | 2013 |
