Systems Bioinformatics: An Engineering Case-Based Approach

Gil Alterovitz, Marco F. Ramoni




This trail-blazing work introduces a quantitative systems approach to bioinformatics research using powerful computational tools drawn from signal processing, circuit analysis, control systems, and communications. It presents the functionality of biological processes in an engineering context to facilitate the application of technical skills in solving the field?s challenges, from the lab bench to data analysis and modeling, and to enable reverse engineering from biology in the development of synthetic biological devices.

This first-of-its-kind text explores how the knowledge bases of various technical disciplines relate to, and are observed, in biological systems. You learn fundamental signal processing techniques that are essential to biological data analysis, including biomedical imaging and image processing, feature extraction, classification, and estimation. You gain a thorough understanding of cellular regulatory systems and their similarities to traditional control systems, protein and gene networks, inference networks, and network dynamics. The book also addresses how biology-inspired molecular structures are being used to solve engineering challenges, and how one can mimic biology?s designs in creating more robust technologies. Moreover, you discover the latest developments in proteomics, where these tools can make an immense impact due to the number, complexity, and interaction networks of proteins. A major addition under the evolving umbrella of systems biology and bioinformatics, this groundbreaking work points you to new frontiers in the convergence of engineering and biological research.


Table of Contents:

Part I--Introduction: Molecular and Cellular Biology

Molecular and Cellular Biology: An Engineering Perspective.

Proteomics: From Genome to Proteome.

Part II?Analysis: Signal Processing

Introduction to Biological Signal Processing at the Cell Level.

Signal Processing Methods for Mass Spectrometry.

Part III?Analysis: Control and Systems

Control and Systems Fundamentals.

Modeling Cellular Networks.

Part IV?Analysis: Probabilistic Data Networks and Communications

Topological Analysis of Biomolecular Networks.

Bayesian Networks for Genetic Analysis

Part V?Design: Synthetic Biology

Fundamentals of Design for Synthetic Biology.

BioJADE: Designing and Building Synthetic Biological Systems from Parts.

Applied Cellular Engineering.

Part VI?Integration: Applying Biology?s Designs and Principles in Engineering

The Three Faces of DNA/RNA Sequence Hybridization.

Application of Biomolecular Computing to Breakthroughs in Cryptography.

Chemotaxis: Learning Navigation and Source Localization Strategies from Biology?s Engineered Designs.

Systems Bioinformatics: Trends and Conclusions.

Appendix: Contributing Authors and Contact Information.

About the Editors.