SBRML: a markup language for associating systems biology data with models. Results: We propose the Systems Biology Results Markup Language (SBRML), an XML-based language that associates a model with several datasets. Each dataset is represented as a series of values associated with model variables, and their corresponding parameter values. SBRML provides a flexible way of indexing the results to model parameter values, which supports both spreadsheet-like data and multidimensional data cubes. We present and discuss several examples of SBRML usage in applications such as enzyme kinetics, microarray gene expression and various types of simulation results.

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  1. De Matteis, Giovanni; Graudenzi, Alex; Antoniotti, Marco: A review of spatial computational models for multi-cellular systems, with regard to intestinal crypts and colorectal cancer development (2013)
  2. Klement, M.; Šafránek, D.; Děd, T.; Pejznoch, A.; Nedbal, L.; Steuer, R.; Červenỳ, J.; Müller, S.: A comprehensive web-based platform for domain-specific biological models (2013) ioport
  3. Dada, Joseph O.; Spasic, Irena; Paton, Norman W.; Mendes, Pedro: SBRML: a markup language for associating systems biology data with models (2010) ioport