Titlebook: Computational Methods in Synthetic Biology; Mario Andrea Marchisio Book 2021Latest edition Springer Science+Business Media, LLC, part of S

整潔

harmony

A Deterministic Compartmental Modeling Framework for Disease Transmission,sent a biological system as an assembly of various parts or compartments with different functions. Here we present a framework for the analysis of a compartmental model for the transmission of diseases using ordinary differential equations. We apply this method on a study about the spread of tuberculosis.

CIS

Computer Aided Assembly and Verification of Synthetic Chromosomes, requires computational tools and workflows to streamline designing, building and verifying long DNA molecules. While a systematic and generic genome design workflow does not exist, here we outline chromosome assembly and verification operations that are at the foundation of every genome scale engineering efforts.

揭穿真相

Theoretical Foundation and Literature Reviewe experimental burden and efficiently explore the promoter fitness landscape. We also describe a software pipeline to ensure that the designed promoter sequences are compatible with the YTK assembly standard.

Robust

Terminology and Key Mapping Conceptsors (CBEs and ABEs), we have developed web tools, named BE-Designer and BE-Analyzer. These tools are easy to use (such that tasks are accomplished by clicking on relevant buttons) and do not require a deep knowledge of bioinformatics.

Organonitrile

Using a Design of Experiments Approach to Inform the Design of Hybrid Synthetic Yeast Promoters,e experimental burden and efficiently explore the promoter fitness landscape. We also describe a software pipeline to ensure that the designed promoter sequences are compatible with the YTK assembly standard.

grandiose

性上癮

https://doi.org/10.1007/978-90-481-3087-0ckled here by efficient optimization methods. We illustrate these methods with case studies considering the analysis and design of biocircuits capable of bistability (bistable switches). Bistability is of particular interest in the context of systems and synthetic biology because it endows cells with the capacity to make decisions.

漂泊

充滿裝飾

https://doi.org/10.1007/978-1-4615-4765-5model for a eukaryotic AND gate in SBML Level 3. Circuit modules, such as transcription units and pools of molecules, are modeled separately and connected, to close the circuit, via Python scripts that utilize the libSBML API. Circuit simulations with COPASI confirm the validity of this modeling approach.