By Vishwesh V. Kulkarni, Guy-Bart Stan, Karthik Raman
The complexity of organic structures has intrigued scientists from many disciplines and has given start to the hugely influential box of systems biology wherein a wide range of mathematical recommendations, equivalent to flux stability research, and know-how structures, comparable to subsequent iteration sequencing, is used to appreciate, elucidate, and are expecting the services of advanced organic structures. extra lately, the sector of synthetic biology, i.e., de novo engineering of organic structures, has emerged. Scientists from a variety of fields are targeting the best way to render this engineering approach extra predictable, trustworthy, scalable, reasonable, and straightforward.
Systems and keep watch over idea is a department of engineering and technologies that carefully offers with the complexities and uncertainties of interconnected platforms with the target of characterising primary systemic homes comparable to balance, robustness, verbal exchange skill, and different functionality metrics. platforms and keep watch over conception additionally strives to provide strategies and techniques that facilitate the layout of platforms with rigorous promises on those homes. over the past a hundred years, it has made stellar theoretical and technological contributions in assorted fields akin to aerospace, telecommunication, garage, automobile, strength structures, and others. Can it have, or evolve to have, the same effect in biology? The chapters during this ebook display that, certainly, platforms and keep an eye on theoretic suggestions and methods may have an important effect in structures and artificial biology.
Volume II comprises chapters contributed through prime researchers within the box of platforms and artificial biology that challenge modeling physiological strategies and bottom-up buildings of scalable organic structures. The modeling difficulties comprise characterisation and synthesis of reminiscence, knowing how homoeostasis is maintained within the face of shocks and comparatively slow perturbations, figuring out the functioning and robustness of organic clocks reminiscent of these on the center of circadian rhythms, and knowing how the mobile cycles should be regulated, between others. a number of the bottom-up building difficulties investigated in quantity II are as follows: How may still biomacromolecules, structures, and scalable architectures be selected and synthesised so one can construct programmable de novo organic platforms? What are the kinds of limited optimisation difficulties encountered during this approach and the way can those be solved successfully?
As the eminent machine scientist Donald Knuth placed it, "biology simply has 500 years of intriguing difficulties to paintings on". This edited e-book provides yet a small fraction of these for the good thing about (1) platforms and keep watch over theorists drawn to molecular and mobile biology and (2) biologists drawn to rigorous modelling, research and keep an eye on of organic systems.
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Extra resources for A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems
For example, Willenbrock et al.  designed a microarray with probes covering the total content of 32 E. coli genomes to characterize novel E. coli strains based on their genomic content. McCarthy et al.  developed a 62-strain S. aureus microarray and used it to compare the genomes of different isolates of S. aureus from pigs and humans. They found that while the core genomes of these isolates did not vary much, the distribution of mobile genetic elements was variable and several mobile elements were host-specific.
These genes were involved in processes important for pathogenicity, such as antibiotic resistance and membrane biosynthesis, and might represent possible targets for therapy. The acquisition of antibiotic resistance by bacterial pathogens is a growing problem, and NGS has been used to investigate this phenomenon. Zhang et al.  grew E. coli in the presence of the antibiotic ciprofloxacin and sequenced the genomes of the bacteria that survived, to identify mutations that gave rise to resistance.
S. Chen (a) (b) (c) Fig. 5 The functional subnetworks of significant proteins identified according to the network biomarker. a Cell growth functional subnetwork. b Cell survival functional subnetwork. c Cell migration functional subnetwork. All the functional subnetworks are extracted from Fig. 2 Mechanism Investigation of the Significant Proteins in Lung Carcinogenesis A total of 40 proteins were determined as significant proteins in lung carcinogenesis using the network biomarker. 1) and the three functional subnetworks were shown in Fig.