Titlebook: Computational Methods in Synthetic Biology; Mario Andrea Marchisio Book 2015 Springer Science+Business Media New York 2015 CAD programs.DN

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enumaerate

Computer-Aided Design of DNA Origami Structuresurable mechanical devices. Of relevance to synthetic biology, DNA origami structures can be delivered to cells where they can perform complicated sense-and-act tasks, and can be used as scaffolds to organize enzymes for enhanced synthesis. The design of DNA origami structures is a complicated matter

backdrop

Computational Design of RNA Parts, Devices, and Transcripts with Kinetic Folding Algorithms Implemendevices with predictable behaviors continues to increase. By combining engineered transcript components, such as ribosome binding sites, transcriptional terminators, ligand-binding aptamers, catalytic ribozymes, and aptamer-controlled ribozymes (aptazymes), gene expression in bacteria can be fine-tu

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豐滿中國(guó)

Programming Languages for Circuit Designh level of abstraction through constraints on otherwise unspecified DNA parts. The GEC compiler then selects parts which satisfy the constraints from a given parts database. GEC further provides more conventional programming language constructs for abstraction, e.g., through modularity. The GEC lang

Inertia

Kappa Rule-Based Modeling in Synthetic Biology from the underlying combinatorial complexity. One such rule-based modeling formalism is Kappa, which we introduce to readers in this chapter. We discuss the application of Kappa to three modeling scenarios in synthetic biology: a unidirectional switch based on nitrosylase induction in ., the repres

Inertia

Modular Design of Synthetic Gene Circuits with Biological Parts and Pools—on the computer screen and connecting them with hypothetical wires. This procedure, achieved by our add-on for the software ProMoT, was successfully applied to bacterial circuits. Recently, we have extended this design-methodology to eukaryotic cells. Here, highly complex components such as promote

中和

Computationally Guided Design of Robust Gene Circuitsc biology. While systems modeling can aid this process and help reduce the space of design strategies, the unavailability and dynamic variability of kinetic parameters limits the utility of such models. Here, we present a general approach that employs an exhaustive enumeration of network architectur

Patrimony

gusher

Feedback Loops in Biological Networkseveral examples, focusing in particular on the mitogen-activated protein kinase (MAPK) pathway, to illustrate the concept that feedback loops are fundamental in determining the overall dynamic behavior of a system. Often, these loops have a structural function and unequivocally define the system beh