Publications

Top 20 cited publications (Google Scholar) May 2026

See my full list of publication on (Google scholar)[https://scholar.google.com/citations?user=W8BqoZ8AAAAJ&hl=en]

  1. C Lieven, ME Beber, BG Olivier, FT Bergmann, M Ataman, P Babaei, …, MEMOTE for standardized genome-scale metabolic model testing, Nature biotechnology 38 (3), 272-276, 2020. Cited by 540
  2. BG Olivier, JL Snoep, Web-based kinetic modelling using JWS Online, Bioinformatics 20 (13), 2143-2144, 2004. Cited by 431
  3. SM Keating, D Waltemath, M König, F Zhang, A Dräger, C Chaouiya, …, SBML Level 3: an extensible format for the exchange and reuse of biological models, Molecular systems biology 16 (8), MSB199110, 2020. Cited by 326
  4. SN Mendoza, BG Olivier, D Molenaar, B Teusink, A systematic assessment of current genome-scale metabolic reconstruction tools, Genome biology 20 (1), 158, 2019. Cited by 291
  5. RA Khandelwal, BG Olivier, WFM Röling, B Teusink, FJ Bruggeman, Community flux balance analysis for microbial consortia at balanced growth, PloS one 8 (5), e64567, 2013. Cited by 273
  6. BG Olivier, JM Rohwer, JHS Hofmeyr, Modelling cellular systems with PySCeS, Bioinformatics 21 (4), 560-561, 2005. Cited by 255
  7. M Hucka, FT Bergmann, C Chaouiya, A Dräger, S Hoops, SM Keating, …, The systems biology markup language (SBML): language specification for level 3 version 2 core release 2, Journal of integrative bioinformatics 16 (2), 20190021, 2019. Cited by 224
  8. M Hucka, FT Bergmann, A Dräger, S Hoops, SM Keating, N Le Novère, …, The Systems Biology Markup Language (SBML): language specification for level 3 version 1 core, Journal of integrative bioinformatics 15 (1), 20170080, 2018. Cited by 194
  9. FT Bergmann, R Adams, S Moodie, J Cooper, M Glont, M Golebiewski, …, COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project, BMC bioinformatics 15 (1), 369, 2014. Cited by 180
  10. JL Snoep, F Bruggeman, BG Olivier, HV Westerhoff, Towards building the silicon cell: a modular approach, Biosystems 83 (2-3), 207-216, 2006. Cited by 169
  11. J Boele, BG Olivier, B Teusink, FAME, the flux analysis and modeling environment, BMC systems biology 6 (1), 8, 2012. Cited by 128
  12. W Gottstein, BG Olivier, FJ Bruggeman, B Teusink, Constraint-based stoichiometric modelling from single organisms to microbial communities, Journal of the Royal Society Interface 13 (124), 20160627, 2016. Cited by 125
  13. TR Maarleveld, BG Olivier, FJ Bruggeman, StochPy: a comprehensive, user-friendly tool for simulating stochastic biological processes, PloS one 8 (11), e79345, 2013. Cited by 118
  14. TR Maarleveld, RA Khandelwal, BG Olivier, B Teusink, FJ Bruggeman, Basic concepts and principles of stoichiometric modeling of metabolic networks, Biotechnology journal 8 (9), 997-1008, 2013. Cited by 108
  15. SM Kelk, BG Olivier, L Stougie, FJ Bruggeman, Optimal flux spaces of genome-scale stoichiometric models are determined by a few subnetworks, Scientific reports 2 (1), 580, 2012. Cited by 106
  16. M Hanemaaijer, WFM Röling, BG Olivier, RA Khandelwal, B Teusink, …, Systems modeling approaches for microbial community studies: from metagenomics to inference of the community structure, Frontiers in microbiology 6, 213, 2015. Cited by 101
  17. BG Olivier, FT Bergmann, SBML level 3 package: flux balance constraints version 2, Journal of integrative bioinformatics 15 (1), 20170082, 2018. Cited by 81
  18. ML Neal, M König, D Nickerson, G Mısırlı, R Kalbasi, A Dräger, K Atalag, …, Harmonizing semantic annotations for computational models in biology, Briefings in bioinformatics 20 (2), 540-550, 2019. Cited by 78
  19. M Hanemaaijer, BG Olivier, WFM Röling, FJ Bruggeman, B Teusink, Model-based quantification of metabolic interactions from dynamic microbial-community data, PloS one 12 (3), e0173183, 2017. Cited by 71
  20. C Lieven, ME Beber, BG Olivier, FT Bergmann, M Ataman, P Babaei, …, Memote: A community driven effort towards a standardized genome-scale metabolic model test suite, BioRxiv, 350991, 2018. Cited by 59