Information Processing: Biomolecular Information Processing - From Logic Systems to Smart Sensors and Actuators

Edited by a renowned and much cited chemist, this book covers the whole span of molecular computers that are based on biomolecules. The contributions by all the major scientists in the field provide an excellent overview of the latest developments in this rapidly expanding area. A must-have for all researchers working on this very hot topic. Perfectly complements Molecular and Supramolecular Information Processing, also by Prof. Katz, and available as a two-volume set.

List of contents

PrefaceBIOMOLECULAR COMPUTING: FROM UNCONVENTIONAL COMPUTING TO "SMART" BIOSENSORS AND ACTUATORS-EDITORIAL INTRODUCTIONPEPTIDE-BASED COMPUTATION: SWITCHES, GATES, AND SIMPLE ARITHMETICIntroductionPeptide-Based Replication Networks Logic Gates within Ternary Networks Symmetry and Order Requirements for Constructing the Logic Gates Taking the Steps toward More Complex Arithmetic Experimental Logic Gates Adaptive Networks Peptide-Based Switches and Gates for Molecular Electronics Summary and Conclusion BIOMOLECULAR ELECTRONICS AND PROTEIN-BASED OPTICAL COMPUTING Introduction Biomolecular and Semiconductor Electronics Bacteriorhodopsin as a Photonic and Holographic Material for Bioelectronics Fourier Transform Holographic Associative Processors Three-Dimensional Optical Memories Genetic Engineering of Bacteriorhodopsin for Device Applications Future Directions BIOELECTRONIC DEVICES CONTROLLED BY ENZYME-BASED INFORMATION PROCESSING SYSTEMS Introduction Enzyme-Based Logic Systems Producing pH Changes as Output Signals Interfacing of the Enzyme Logic Systems with Electrodes Modified with Signal-Responsive Polymers Switchable Biofuel Cells Controlled by the Enzyme Logic Systems Biomolecular Logic Systems Composed of Biocatalytic and Biorecognition Units and Their Integration with Biofuel Cells Processing of Injury Biomarkers by Enzyme Logic Systems Associated with Switchable Electrodes Summary and Outlook ENZYME LOGIC DIGITAL BIOSENSORS FOR BIOMEDICAL APPLICATIONS Introduction Enzyme-Based Logic Systems for Identification of Injury Conditions Multiplexing of Injury Codes for the Parallel Operation of Enzyme Logic Gates Scaling Up the Complexity of the Biocomputing Systems for Biomedical Applications - Mimicking Biochemical Pathways Application of Filter Systems for Improving Digitalization of the Output Signals Generated by Enzyme Logic Systems for Injury Analysis Conclusions and Perspectives INFORMATION SECURITY APPLICATIONS BASED ON BIOMOLECULAR SYSTEMS Introduction Molecular and Bio-molecular Keypad Locks Antibody Encryption and Steganography Bio-barcode Conclusion BIOCOMPUTING: EXPLORE ITS REALIZATION AND INTELLIGENT LOGIC DETECTION Introduction DNA BiocomputingAptamer Biocomputing Enzyme Biocomputing Conclusions and Perspectives SOME EXPERIMENTS AND MODELS IN MOLECULAR COMPUTING AND ROBOTICS Introduction From Gates to Programmable Automata From Random Walker to Molecular Robotics ConclusionsBIOMOLECULAR FINITE AUTOMATA Introduction Biomolecular Finite Automata Biomolecular Finite Transducer Applications in Developmental Biology Outlook IN VIVO INFORMATION PROCESSING USING RNA INTERFERENCE Introduction RNA Interference-Based Logic Building the Sensory Module Outlook BIOMOLECULAR COMPUTING SYSTEMS Introduction DNA as a Tool for Molecular Programming Birth of DNA Computing: Adleman's Experiment and Extensions Computation Using DNA Tiles Experimental Advances in Purely Hybridization-Based Computation Experimental Advances in Enzyme-Based DNA Computing Biochemical DNA Reaction Networks Conclusion: Challenges in DNA-Based Biomolecular Computation ENUMERATION APPROACH TO THE ANALYSIS OF INTERACTING NUCLEIC ACID STRANDS Introduction Definitions and Notations for Set and Multiset Chemical Equilibrium and Hybridization Reaction System Symmetric Enumeration Method Applying SEM to Nucleic Acid Strands Interaction Conclusions RESTRICTION ENZYMES IN LANGUAGE GENERATION AND PLASMID COMPUTING Introduction Wet Splicing Systems Dry Splicing Systems Splicing Theory: Its Original Motivation and Its Extensive Unforeseen Developments Computing with Plasmids Fluid Memory Examples of Aqueous Computations Final Comments about Computing with Biomolecules DEVELOPMENT OF BACTERIA-BASED CELLULAR COMPUTING CIRCUITS FOR SENSING AND CONTROL IN BIOLOGICAL SYSTEMS Introduction Cellular Computing Circuits Conclusion THE LOGIC OF DECISION MAKING IN ENVIRONMENTAL BACTERIA Introduction Building Models for Biological Networks Formulation and Simulation of Regulatory Networks Boolean Analysis of Regulatory Networks Boolean Description of m-xylene Biodegradation by P. putida mt-2: the TOL logicome Conclusion and Outlook QUALITATIVE AND QUANTITATIVE ASPECTS OF A MODEL FOR PROCESSES INSPIRED BY THE FUNCTIONING OF THE LIVING CELL Introduction Reactions Reaction Systems Examples Reaction Systems with Measurements Generalized Reactions A Generic Quantitative Model Approximations of Gene Expression Systems Simulating Approximations by Reaction Systems Discussion COMPUTATIONAL METHODS FOR QUANTITATIVE SUBMODEL COMPARISONIntroductionMethods for Model DecompositionMethods for Submodel ComparisonCase StudyDiscussionCONCLUSIONS AND PERSPECTIVES Index

About the author

Evgeny Katz received his Ph.D. in Chemistry from Frumkin Institute of Electrochemistry (Moscow) in 1983. He was a senior researcher in the Institute of Photosynthesis (Pushchino), Russian Academy of Sciences (1983 - 1991), a Humboldt fellow at München Technische Universität (Germany) (1992 - 1993), and a research associate professor at the Hebrew University of Jerusalem (1993 - 2006). From 2006 he is Milton Kerker Chaired Professor at the Department of Chemistry and Biomolecular Science, Clarkson University, NY (USA). He has (co)authored over 300 papers in the areas of biocomputing, bioelectronics, biosensors and biofuel cells (Hirsch-index 65). He serves as Editor-in-Chief for IEEE Sensors Journal and a member of editorial boards of many other journals.§On February 10, 2011, Thomson Reuters released data identifying the world's top 100 chemists over the past 10 years as ranked by the impact of their published research. Evgeny Katz was included in the list as No.62 from approximately a million chemists indexed by Thomson Reuters.

Summary

Edited by a renowned and much cited chemist, this book covers the whole span of molecular computers that are based on biomolecules. The contributions by all the major scientists in the field provide an excellent overview of the latest developments in this rapidly expanding area.
A must-have for all researchers working on this very hot topic.
Perfectly complements Molecular and Supramolecular Information Processing, also by Prof. Katz, and available as a two-volume set.

Product details

• Authors: Evgeny Katz
• Assisted by: Evgen Katz (Editor), Evgeny Katz (Editor)
• Publisher: Wiley-VCH
• Languages: English
• Product format: Hardback
• Released: 01.07.2012
• EAN: 9783527332281
• ISBN: 978-3-527-33228-1
• No. of pages: 358
• Weight: 856 g
• Illustrations: 118 SW-Abb., 16 Farbabb., 2 Tabellen
• Set: Information Processing
• Series: Information Processing
• Subjects: Natural sciences, medicine, IT, technology > Chemistry > Organic chemistry; Chemie, Nanotechnologie, Biochemie, Sensoren, chemistry, Materialwissenschaften, Nanotechnology, Materials science, Nanochemistry, Electronic materials, Elektronische Materialien, Biomolecules (DNA, RNA, Peptides, etc.), Biomoleküle (DNA, RNA, Peptide), Nanochemie, Biomolekül, Sensor Materials