This second edition book provides complete coverage of the computational approaches currently used in Synthetic Biology. New chapters detail computational methods and algorithms for the design of bio-components, insight on CAD programs, analysis techniques, and distributed systems. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, application details for both the expert and non-expert reader, and tips on troubleshooting and avoiding known pitfalls.

1. Using a Design of Experiments Approach to Inform the Design of Hybrid Synthetic Yeast Promoters.- Computational Design of Multiplex Oligonucleotide-Based Assays.- Computational Methods For The Design Of Recombinase Logic Circuits.- Modular Modeling Of Genetic Circuits in SBML Level 3.-- CRISPR-ERA: A Webserver for Guide RNA Design of Gene Editing and Regulation.- iGUIDE Method for CRISPR Off-target Detection.- Web-based Base Editing Toolkits: BE-Designer and BE-Analyzer.- Synthetic Gene Circuit Analysis and Optimization.- Monitoring Single S. cerevisiae Cells with Multi-Frequency Electrical Impedance Spectroscopy in an Electrode-integrated Microfluidic Device.- Construction of Protein Expression Network.- Systems-theoretic Approaches to Design Biological Networks with Desired Functionalities.- A Deterministic Compartmental Modeling Framework for Disease Transmission.- Computer Aided Assembly and Verificationof Synthetic Chromosomes.- Minimal Genome Design Algorithms using Whole-Cell Models.- Tn-Core: Functionally Interpreting Transposon-Sequencing Data with Metabolic Network Analysis.- Genome-scale Metabolic Modeling of Escherichia coli and its Chassis Design for Synthetic Biology Applications.- A Systems Bioinformatics Approach to Interconnect Biological Pathways.