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TABASCO

swMATH ID: 20856
Software Authors: Kosuri S, Kelly J, Endy D
Description: TABASCO: A single molecule base-pair resolved gene expression simulator. TABASCO is a simulator created to address the problem of simulating gene expression at single-base resolution. By defining the logic of transcription and translation rules a priori such as initiation, elongation, termination, and interactions of polymerases and proteins, Tabasco automatically traverses the state of the system as it develops and thus makes simulation at such high resolution computationally feasible. Tabasco was designed to allow us to better understand bacteriophage gene expression. In general, Tabasco would be useful to those interested in explicitly simulating hypotheses of protein-DNA interactions and their relation to gene expression (e.g., eukaryotic gene expression initiation). A research article describing Tabasco has been published (BMC Bioinformatics 2007, 8:480 doi:10.1186/1471-2105-8-480)
Homepage: http://www.openwetware.org/wiki/TABASCO
Related Software: lpSolve; SUNDIALS; SciPy; ProMoT; SynBioSS; BioJADE; Celldesigner; SCAMP; CellML; PySCeS; TinkerCell
Cited in: 0 Documents