Algorithms for sample preparation with microfluidic lab-on-chip / Sukanta Bhattacharjee, Bhargab B. Bhattacharya, Krishnendu Chakrabarty.

Print version record

Front Cover; Half Title Page; RIVER PUBLISHERS SERIES IN BIOMEDICALENGINEERING; Title Page; Copyright Page; Contents; Preface; List of Figures; List of Tables; List of Abbreviations; Chapter 1 -- Introduction; 1.1 Basics of Microfluidic Biochips; 1.2 Design Automation of Microfluidic Biochips; 1.3 Sample Preparation with Microfluidic Biochips; 1.4 Organization of the Book; Chapter 2 -- Sample Preparation with Microfluidic Biochips: A Review; 2.1 Dilution Algorithms for DMFB; 2.1.1 Single-target Dilution Algorithms; 2.1.2 Multiple-target Dilution Algorithms

2.1.3 Generation of Dilution Gradients2.2 Mixing Algorithms for DMFB; 2.3 Droplet Streaming Algorithms; 2.4 Dilution and Mixing Algorithms for CFMB; 2.5 Summary; Chapter 3 -- Multiple Dilution Sample Preparation on Digital Microfluidic Biochips; 3.1 Related Work; 3.2 Tree-pruning-based Dilution Algorithm; 3.2.1 Proposed Methodology; 3.3 Experimental Results; 3.4 Conclusions; Chapter 4 -- Efficient Generation of Dilution Gradients with Digital Microfluidic Biochips; 4.1 Literature Review; 4.2 Linear Gradient; 4.3 Exponential Gradient; 4.4 Complex-shaped Gradients

4.4.1 Digital Curve Representation of a Gradient Profile4.4.2 Identification of DSS on a Gradient Profile; 4.5 Experimental Results; 4.5.1 Linear Gradient; 4.5.2 Exponential Gradients; 4.5.3 Parabolic, Sinusoidal, and Gaussian Gradients; 4.6 Conclusions; Chapter 5 -- Concentration-Resilient Mixture Preparation; 5.1 Related Work; 5.2 Motivation and Problem Definition; 5.3 Proposed Method; 5.3.1 An ILP Formulation for Optimal Solution; 5.4 Experimental Results; 5.5 Conclusions; Chapter 6 -- Dilution and Mixing Algorithms for Flow-based Microfluidic Biochips

6.1 Sample Preparation and Mixing Models6.2 Related Work; 6.3 Motivation and Contribution; 6.4 Overview of the Proposed Method; 6.5 Dilution; 6.5.1 Approximation of the Target Concentration Factor; 6.5.2 Modeling of Dilution; 6.5.3 Dilution Algorithm; 6.6 Mixture Preparation; 6.6.1 Approximation of the Target Mixture-Ratio; 6.6.2 Generalized Mixing Algorithm; 6.6.3 SMT-based Modeling of Reagent-saving Mixing; 6.6.4 Reagent-Saving Mixing Algorithm; 6.7 Experimental Results; 6.7.1 Performance Evaluation for Dilution; 6.7.2 Performance Evaluation for Reagent-Saving Mixing

6.7.3 Performance of FloSPA on Real-life Dilution and Mixing Ratios6.8 Conclusions; Chapter 7 -- Storage-Aware Algorithms for Dilution and Mixture Preparation with Flow-Based Lab-on-Chip; 7.1 Related Works; 7.2 Storage-Aware Sample Preparation; 7.2.1 Overview; 7.2.2 Storage-Aware Dilution; 7.2.3 Overview of the Storage-Aware Mixing; 7.3 Experimental Results; 7.3.1 Performance for Dilution; 7.3.2 Performance for Mixing; 7.4 Conclusions; Chapter 8 -- Conclusion and Future Directions; Bibliography; Index; About the Authors; Back Cover

Recent microfluidic technologies have brought a complete paradigm shift in automating biochemical processing on a tiny lab-on-chip (a.k.a. biochip) that replaces expensive and bulky instruments traditionally used in implementing bench-top laboratory protocols. Biochips have already made a profound impact on various application domains such as clinical diagnostics, DNA analysis, genetic engineering, and drug discovery, among others. They are capable of precisely manipulating micro-/pico-liter quantities of fluids, and provide integrated support for mixing, storage, transportation, and sensing, on-chip. In almost all bioprotocols, sample preparation plays an important role, which includes dilution and mixing of several fluids satisfying certain volumetric ratios. However, designing algorithms that minimize reactant-cost and sample-preparation time suited for microfluidic chips poses a great challenge from the perspective of protocol mapping, scheduling, and physical design. Algorithms for Sample Preparation with Microfluidic Lab-on-Chip attempts to bridge the widening gap between biologists and engineers by introducing, from the fundamentals, several state-of-the-art computer-aided-design (CAD) algorithms for sample preparation with digital and flow-based microfluidic biochips. Technical topics discussed in the book include: * Basics of digital and flow-based microfluidic lab-on-chip * Comprehensive review of state-of-the-art sample preparation algorithms * Sample-preparation algorithms for digital microfluidic lab-on-chip * Sample-preparation algorithms for flow-based microfluidic lab-on-chip.

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