Cooper, Jonathan

COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project

Bergmann, F. T., Adams, R., Moodie, S., Cooper, J., Glont, M., Golebiewski, M., Hucka, M., Laibe, C., Miller, A. K., Nickerson, D. P., et al. (2014) · BMC Bioinformatics

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Minimum Information About a Simulation Experiment (MIASE)

Waltemath, D., Adams, R., Beard, D. A., Bergmann, F. T., Bhalla, U. S., Britten, R., Chelliah, V., Cooling, M. T., Cooper, J., Crampin, E. J., et al. (2011) · PLoS Computational Biology

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An integrative computational model for intestinal tissue renewal

Van Leeuwen, I. M. M., Mirams, G. R., Walter, A., Fletcher, A., Murray, P., Osborne, J., Varma, S., Young, S. J., Cooper, J., Doyle, B., et al. (2009) · Cell Proliferation

Wnt/β-catenin signaling in development and cancerMathematical Biology Tumor Growth

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Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3)

Bergmann, F. T., Cooper, J., König, M., Moraru, I., Nickerson, D., Le Novère, N., Olivier, B. G., Sahle, S., Smith, L., & Waltemath, D. (2018) · Journal of Integrative Bioinformatics

Scientific Computing and Data ManagementGene Regulatory Network Analysis

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Where next for the reproducibility agenda in computational biology?

Lewis, J., Breeze, C. E., Charlesworth, J., Maclaren, O. J., & Cooper, J. (2016) · BMC Systems Biology

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