Bücher der Reihe SpringerBriefs in Systems Biology

This Brief reports on the interplay of an amino-acid mutation towards substrate which could lead to enhanced effects on mutant. There are very few reports showing such stable, energy efficient model towards improved protein function prediction screening in-silico structure based mutagenesis of xylanases from Thermomyces lanuginosus

Using genome sequencing, one can predict possible interactions among proteins. Topics include analysis of complex genome-scale protein-protein interaction networks, effects of reference genome selection on prediction accuracy, and genome sequence templates to predict protein function.

This SpringerBrief focuses on clinical nutrition research, particularly on the effects of slowly absorbed carbohydrates on postprandial glucose metabolism in type 2 diabetes.

The goal of this book is to introduce the biological and technical aspects of next generation sequencing methods, as well as algorithms to assemble these sequences into whole genomes. The book is organized into two parts; part 1 introduces NGS methods and part 2 reviews assembly algorithms and gives a good insight to these methods for readers new to the field. Gathering information, about sequencing and assembly methods together, helps both biologists and computer scientists to get a clear idea about the field. Chapters will include information about new sequencing technologies such as ChIp-seq, ChIp-chip, and De Novo sequence assembly.

A key experiment in biomedical research is monitoring the expression of different proteins in order to detect changes that occur in biological systems under different experimental conditions. The method that is most widely used is the Western blot analysis. While Western blot is a workhorse in laboratories studying protein expression and has several advantages, it also has a number of significant limitations. In particular, the method is semi-quantitative with limited dynamic range. Western blot focuses on a single protein per sample with only a small number of representative samples analyzed in an experiment. New quantitative tools have been needed for some time to at least supplement, & possibly replace, the Western blot. Mass spectrometric methods have begun to compete with Western blot for routine quantitative analyses of proteins. One of these methods is based on the tandem mass spectrometry technique of selected reaction monitoring (SRM), which is also called multiple reaction monitoring (MRM). Selected reaction monitoring is actually an older tandem mass spectrometry technique, first described in the late 70s, that is widely utilized in the quantitative analysis of small molecules like drugs & metabolites. The use of selected reaction monitoring for the quantitative analysis of proteins has a number of advantages. Most importantly, it is fundamentally quantitative with a wide dynamic range. The output of the analysis is a numerical result that can range over several orders of magnitude. Other advantages include sufficient specificity & sensitivity to detect low abundance proteins in complex mixtures. Finally, selected reaction monitoring can be multiplexed to allow the quantitative analysis of relatively large numbers of proteins in a single sample in a single experiment. This Brief will explain both the theoretical & experimental details of the selected reaction monitoring experiment as it is applied to proteins.

With the rise of systems biology as an approach in biochemistry research, using high throughput techniques such as mass spectrometry to generate metabolic profiles of cancer metabolism is becoming increasingly popular. There are examples of cancer metabolic profiling studies in the academic literature; however they are often only in journals specific to the metabolomics community. This book will be particularly useful for post-graduate students and post-doctoral researchers using this pioneering technique of network-based correlation analysis. The approach can be adapted to the analysis of any large scale metabolic profiling experiment to answer a range of biological questions in a range of species or for a range of diseases.

Advances in technological and analytical methods have fostered rapid growth of systems biology and synthetic biology.  There continues to be rapid changes and discoveries in both fields with a small number of recent peer-reviewed reviews indicating some of the relationships between systems biology and synthetic biology.  This proposed SpringerBrief will cover core concepts of systems biology and synthetic biology and illustrate the implementation of associated research methodologies for an integrated approach to specifically address engineering microorganisms for biofuel production.¿

This book serves as a brief introduction to phylogenetic trees and molecular evolution for biologists and biology students. It does so by presenting the main concepts in a variety of ways: first visually, then in a history, next in a dice game, and finally in simple equations. The content is primarily designed to introduce upper-level undergraduate and graduate students of biology to phylogenetic tree reconstruction and the underlying models of molecular evolution.  A unique feature also of interest to experienced researchers is the emphasis on simple ways to quantify the uncertainty in the results more fully than is possible with standard methods.