A resource dependent protein synthesis model for evaluating synthetic\n circuits

2016/10/13 by Wolfgang Halter, Halter, Wolfgang, Jan Maximilian Montenbruck +5
Biochemistry, Genetics and Molecular Biology · #Bacterial Genetics and Biotechnology #FOS: Biological sciences #Gene Regulatory Network Analysis #Microbial Metabolic Engineering and Bioproduction #Molecular Networks (q-bio.MN) #Subcellular Processes (q-bio.SC)

paper · pdf · doi:10.48550/arxiv.1610.04041

openalex publication_date 2016/10/13 · openalex created_date 2022/10/04 · openalex updated_date 2026/07/28

Abstract

Reliable in-silico design of synthetic gene networks necessitates novel\napproaches to model the process of protein synthesis under the influence of\nlimited resources. We present such a novel protein synthesis model which\noriginates from the Ribosome Flow Model and among other things describes the\nmovement of RNA-polymerase and Ribosomes on mRNA and DNA templates\nrespectively. By analyzing the convergence properties of this model based upon\ngeometric considerations we present additional insights into the dynamic\nmechanisms of the process of protein synthesis. Further, we exemplarily show\nhow this model can be used to evaluate the performance of synthetic gene\ncircuits under different loading scenarios.\n

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