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by R. Paul Schaudies
Biological Identification
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Woodhead Publishing Series in Electronic and Optical Materials
Preface
Part I: Technology for DNA and RNA analysis of pathogens
1. Nucleic acid sequencing for characterizing infectious and/or novel agents in complex samples
Abstract:
1.1 Pathogen sequencing and applications in public health and biosecurity
1.2 Next-generation sequencing (NGS) technologies and the sequencing landscape
1.3 Characterization of known pathogens
1.4 Discovery of novel agents
1.5 Future trends
1.6 Acknowledgments
1.7 References
2. Multiplexed, lateral flow, polymerase chain reaction (PCR) techniques for biological identification
Abstract:
2.1 Introduction
2.2 Real-time PCR: development and description
2.3 Considerations when developing a real-time PCR assay
2.4 Real-time PCR instrument platforms
2.5 References
3. Isothermal amplification of specific sequences
Abstract:
3.1 Introduction
3.2 Melting temperature (Tm) estimation and categories of isothermal amplification technologies
3.3 Isothermal amplification based on DNA polymerases
3.4 Isothermal amplification based on RNA polymerases
3.5 Future prospects
3.6 References
4. Bead array technologies for genetic disease screening and microbial detection
Abstract:
4.1 Introduction
4.2 Luminex® xMAP® Technology
4.3 Illumina VeraCode
4.4 NanoString nCounter
4.5 Applications
4.6 Conclusion
4.7 References
Part II: Lab-on-chip and portable systems for biodetection and analysis
5. Electrochemical detection for biological identification
Abstract:
5.1 Introduction
5.2 Electrochemical techniques for bioanalysis
5.3 Electrochemical biosensors for pathogens
5.4 Conclusions
5.5 References
6. Conductometric biosensors
Abstract:
6.1 Introduction
6.2 Conductometry in enzyme catalysis
6.3 Conductometric enzyme biosensors based on direct analysis – I: Biosensors for biomedical applications
6.4 Conductometric enzyme biosensors based on direct analysis – II: Biosensors for environmental applications
6.5 Conductometric enzyme biosensors based on direct analysis – III: Biosensors for agribusiness applications
6.6 Conductometric enzyme biosensors based on inhibition analysis
6.7 Whole cell conductometric biosensors
6.8 DNA-based conductometric biosensors
6.9 Conductometric biosensors for detection of microorganisms
6.10 Conclusions
6.11 References
7. Bio-chem-FETs: field effect transistors for biological sensing
Abstract:
7.1 Introduction
7.2 The field effect transistor (FET)
7.3 Chemical compounds and biological units as sensing elements in Bio-chem-FETs
7.4 Nanomaterials and nanoengineering in the design of Bio-chem-FETs
7.6 References
8. Microfluidic devices for rapid identification and characterization of pathogens
Abstract:
8.1 Introduction
8.2 Challenges and technical as well as commercial solutions
8.3 Pathogens and analytes
8.4 Chip-based analysis of protein-based analytes in microfluidic devices
8.5 Chip-based analysis of nucleic acid-based analytes in microfluidic devices
8.6 Future trends
8.7 Acknowledgements
8.8 References
Part III: Optical systems for biological identification
9. Optical biodetection using receptors and enzymes (porphyrin-incorporated)
Abstract:
9.1 Introduction
9.2 Prior research/literature
9.3 Binding of cells
9.4 Binding of a receptor to a simulated ‘toxin’
9.5 Binding of the simulated 'toxin' to the receptor
9.6 Binding of a specific antigen diagnostic of cancer to a receptor
9.7 Binding of cholera toxin
9.8 Binding of influenza
9.9 Conclusion
9.10 References
10. Overview of terahertz spectral characterization for biological identification
Abstract:
10.1 Introduction
10.2 Fundamentals of terahertz vibrational spectroscopy for biological identification of large biological molecules and species
10.3 Overview
10.4 Recent and future trends
10.5 Approach for computational modeling of vibrational frequencies and absorption spectra of biomolecules
10.6 The problem with a poor convergence of simulation
10.7 Other problems: dissipation time scales
10.8 Statistical model for Escherichia coli DNA sequence
10.9 Component-based model for Escherichia coli cells
10.10 Experimental sub-terahertz spectroscopy of biological molecules and species
10.11 Conclusions and future trends
10.12 Acknowledgments
10.13 References
11. Raman spectroscopy for biological identification
Abstract:
11.1 Introduction
11.2 Experimental methods used to capture intensive variability
11.3 Multivariate spectral analysis methods
11.4 Species-level biological identification results
11.5 Conclusions
11.6 Acknowledgments
11.7 References
12. Lidar (Light Detection And Ranging) for biodetection
Abstract:
12.1 Introduction
12.2 The value of early warning
12.3 The essentials of Bio-Lidar
12.4 How Bio-Lidar is used
12.5 Bio-Lidar value-added
12.6 Areas for improvement
12.7 The value of integration
12.8 Conclusions and future trends
12.9 References
Part IV: Sample preparation and mass spectrometry-based biological analysis
13. Electrophoretic approaches to sample collection and preparation for nucleic acids analysis
Abstract:
13.1 Introduction
13.2 Separation parameters for nucleic acids for use in sample preparation
13.3 Electrophoresis using uniform electric fields for sample preparation and analysis
13.4 Electrophoresis using non-uniform electric field gradients for sample preparation and analysis
13.5 Comparison of electrophoretic techniques for sample preparation and contaminant rejection
13.6 Future trends
13.7 Sources of further information and advice
13.8 Acknowledgments
13.9 References
14. Mass spectrometry-based proteomics techniques for biological identification
Abstract:
14.1 Introduction
14.2 Bacterial proteome handling, processing and separation methods
14.3 Sample ionization and introduction for mass spectrometry (MS) analysis
14.4 Mass spectral proteomic methods
14.5 Computational and bioinformatics approaches for data mining and discrimination of microbes
14.6 Peptide mass fingerprinting (PMF) and matrix-assisted laser desorption/ionization-tandem mass spectrometry (MALDI-MS/MS) of peptides
14.7 Analysis of MALDI-MS spectra
14.8 Analyses of double-blind bacterial mixtures
14.9 Conclusions
14.10 References
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