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Design and Testing of Digital Microfluidic Biochips by Yang Zhao,Krishnendu Chakrabarty Pdf
This book provides a comprehensive methodology for automated design, test and diagnosis, and use of robust, low-cost, and manufacturable digital microfluidic systems. It focuses on the development of a comprehensive CAD optimization framework for digital microfluidic biochips that unifies different design problems. With the increase in system complexity and integration levels, biochip designers can utilize the design methods described in this book to evaluate different design alternatives, and carry out design-space exploration to obtain the best design point.
Exact Design of Digital Microfluidic Biochips by Oliver Keszocze,Robert Wille,Rolf Drechsler Pdf
This book presents exact, that is minimal, solutions to individual steps in the design process for Digital Microfluidic Biochips (DMFBs), as well as a one-pass approach that combines all these steps in a single process. All of the approaches discussed are based on a formal model that can easily be extended to cope with further design problems. In addition to the exact methods, heuristic approaches are provided and the complexity classes of various design problems are determined. Presents exact methods to tackle a variety of design problems for Digital Microfluidic Biochips (DMFBs); Describes an holistic, one-pass approach solving different design steps all at once; Based on a formal model of DMFBs that is easily adaptable to deal with further design tasks.
Digital Microfluidic Biochips by Krishnendu Chakrabarty,Tao Xu Pdf
Microfluidics-based biochips combine electronics with biochemistry, providing access to new application areas in a wide variety of fields. Continued technological innovations are essential to assuring the future role of these chips in functional diversification in biotech, pharmaceuticals, and other industries.Revolutionary guidance on design, opti
Digital Microfluidic Biochips by Krishnendu Chakrabarty,Fei Su Pdf
Digital Microfluidic Biochips focuses on the automated design and production of microfluidic-based biochips for large-scale bioassays and safety-critical applications. Bridging areas of electronic design automation with microfluidic biochip research, the authors present a system-level design automation framework that addresses key issues in the design, analysis, and testing of digital microfluidic biochips. The book describes a new generation of microfluidic biochips with more complex designs that offer dynamic reconfigurability, system scalability, system integration, and defect tolerance. Part I describes a unified design methodology that targets design optimization under resource constraints. Part II investigates cost-effective testing techniques for digital microfluidic biochips that include test resource optimization and fault detection while running normal bioassays. Part III focuses on different reconfiguration-based defect tolerance techniques designed to increase the yield and dependability of digital microfluidic biochips. Expanding upon results from ongoing research on CAD for biochips at Duke University, this book presents new design methodologies that address some of the limitations in current full-custom design techniques. Digital Microfluidic Biochips is an essential resource for achieving the integration of microfluidic components in the next generation of system-on-chip and system-in-package designs.
Micro-Electrode-Dot-Array Digital Microfluidic Biochips by Zipeng Li,Krishnendu Chakrabarty,Tsung-Yi Ho,Chen-Yi Lee Pdf
This book provides an insightful guide to the design, testing and optimization of micro-electrode-dot-array (MEDA) digital microfluidic biochips. The authors focus on the characteristics specific for MEDA biochips, e.g., real-time sensing and advanced microfluidic operations like lamination mixing and droplet shape morphing. Readers will be enabled to enhance the automated design and use of MEDA and to develop a set of solutions to facilitate the full exploitation of design complexities that are possible with standard CMOS fabrication techniques. The book provides the first set of design automation and test techniques for MEDA biochips. The methods described in this book have been validated using fabricated MEDA biochips in the laboratory. Readers will benefit from an in-depth look at the MEDA platform and how to combine microfluidics with software, e.g., applying biomolecular protocols to software-controlled and cyberphysical microfluidic biochips.
Design and Testing of Digital Microfluidic Biochips by Krishnendu Chakrabarty,Springer Pdf
This book provides a comprehensive methodology for automated design, test and diagnosis, and use of robust, low-cost, and manufacturable digital microfluidic systems. It focuses on the development of a comprehensive CAD optimization framework for digital microfluidic biochips that unifies different design problems. With the increase in system complexity and integration levels, biochip designers can utilize the design methods described in this book to evaluate different design alternatives, and carry out design-space exploration to obtain the best design point.
Fault-Tolerant Digital Microfluidic Biochips by Paul Pop,Mirela Alistar,Elena Stuart,Jan Madsen Pdf
This book describes for researchers in the fields of compiler technology, design and test, and electronic design automation the new area of digital microfluidic biochips (DMBs), and thus offers a new application area for their methods. The authors present a routing-based model of operation execution, along with several associated compilation approaches, which progressively relax the assumption that operations execute inside fixed rectangular modules. Since operations can experience transient faults during the execution of a bioassay, the authors show how to use both offline (design time) and online (runtime) recovery strategies. The book also presents methods for the synthesis of fault-tolerant application-specific DMB architectures. · Presents the current models used for the research on compilation and synthesis techniques of DMBs in a tutorial fashion; · Includes a set of “benchmarks”, which are presented in great detail and includes the source code of most of the techniques presented, including solutions to the basic compilation and synthesis problems; · Discusses several new research problems in detail, using numerous examples.
Hardware/Software Co-Design and Optimization for Cyberphysical Integration in Digital Microfluidic Biochips by Yan Luo,Krishnendu Chakrabarty,Tsung-Yi Ho Pdf
This book describes a comprehensive framework for hardware/software co-design, optimization, and use of robust, low-cost, and cyberphysical digital microfluidic systems. Readers with a background in electronic design automation will find this book to be a valuable reference for leveraging conventional VLSI CAD techniques for emerging technologies, e.g., biochips or bioMEMS. Readers from the circuit/system design community will benefit from methods presented to extend design and testing techniques from microelectronics to mixed-technology microsystems. For readers from the microfluidics domain, this book presents a new design and development strategy for cyberphysical microfluidics-based biochips suitable for large-scale bioassay applications. • Takes a transformative, “cyberphysical” approach towards achieving closed-loop and sensor feedback-driven biochip operation under program control; • Presents a “physically-aware” system reconfiguration technique that uses sensor data at intermediate checkpoints to dynamically reconfigure biochips; • Enables readers to simplify the structure of biochips, while facilitating the “general-purpose” use of digital microfluidic biochips for a wider range of applications.
Secure and Trustworthy Cyberphysical Microfluidic Biochips by Jack Tang,Mohamed Ibrahim,Krishnendu Chakrabarty,Ramesh Karri Pdf
This book describes novel hardware security and microfluidic biochip design methodologies to protect against tampering attacks in cyberphysical microfluidic biochips (CPMBs). It also provides a general overview of this nascent area of research, which will prove to be a vital resource for practitioners in the field.This book shows how hardware-based countermeasures and design innovations can be a simple and effective last line of defense, demonstrating that it is no longer justifiable to ignore security and trust in the design phase of biochips.
Digital Microfluidic Biochips by Krishnendu Chakrabarty,Fei Su Pdf
Digital Microfluidic Biochips focuses on the automated design and production of microfluidic-based biochips for large-scale bioassays and safety-critical applications. Bridging areas of electronic design automation with microfluidic biochip research, the authors present a system-level design automation framework that addresses key issues in the design, analysis, and testing of digital microfluidic biochips. The book describes a new generation of microfluidic biochips with more complex designs that offer dynamic reconfigurability, system scalability, system integration, and defect tolerance. Part I describes a unified design methodology that targets design optimization under resource constraints. Part II investigates cost-effective testing techniques for digital microfluidic biochips that include test resource optimization and fault detection while running normal bioassays. Part III focuses on different reconfiguration-based defect tolerance techniques designed to increase the yield and dependability of digital microfluidic biochips. Expanding upon results from ongoing research on CAD for biochips at Duke University, this book presents new design methodologies that address some of the limitations in current full-custom design techniques. Digital Microfluidic Biochips is an essential resource for achieving the integration of microfluidic components in the next generation of system-on-chip and system-in-package designs.
Design Automation Methods and Tools for Microfluidics-Based Biochips by Jun Zeng Pdf
Design Automation Methods and Tools for Microfluidics-Based Biochips deals with all aspects of design automation for microfluidics-based biochips. Experts have contributed chapters on many aspects of biochip design automation. Topics covered include: device modeling; adaptation of bioassays for on-chip implementations; numerical methods and simulation tools; architectural synthesis, scheduling and binding of assay operations; physical design and module placement; fault modeling and testing; and reconfiguration methods.
Design Automation for Digital Microfluidic Biochips by Tsung-Yi Ho Pdf
This book demonstrates the use of computer-aided design (CAD) tools to automate and optimize the design and synthesis of digital microfluidicbiochips (DMFBs) in fluidic and chip/hardware domains. It describes several associative combinatorial and geometric optimization problems; considers new constraints in low-cost, large-scale biochip design; and includes real-life bioassays as evaluation examples (e.g., DNA sample preparation, multiplexed in-vitro human physiological fluids diagnostics, PCR, and protein crystallization). The CAD techniques presented address real manufacturing issues and can be applied directly to industrial product development.
Algorithms for Sample Preparation with Microfluidic Lab-on-Chip by Sukanta Bhattacharjee,Bhargab B. Bhattacharya,Krishnendu Chakrabarty Pdf
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-chipComprehensive review of state-of-the-art sample preparation algorithmsSample-preparation algorithms for digital microfluidic lab-on-chipSample-preparation algorithms for flow-based microfluidic lab-on-chip
Routing and Performance Optimization of Digital Microfluidic Biochip by Sarit Chakraborty Pdf
Digital Microfluidic Biochips or DMFBs have emerged as a great alternative to various in-vitro diagnostic tests in recent past. These chips are expected to be closely coupled up with cyberphysical systems and with other healthcare-related systems in the near future. Hence, design optimization of such micro or nano-scale DMFB requires interdisciplinary study of computer science, electronics along with biochemistry and medical technology. Research in this new discipline of nano-biotechnology needs the integration of diverse fields such as microelectronics, biochemistry, in-vitro diagnostics, computer-aided design and optimization, fabrication technology in association with healthcare engineering methodologies. Potential applications of DMFBs include several real-life applications such as point-of-care clinical diagnostics, enzymatic analysis (e.g., glucose and lactate assays), high-throughput DNA (Deoxyribonucleic acid) sequencing, immunoassay, proteomics (study of protein structure) and environmental toxicity monitoring, water and air pollutant detection, or food processing and so on and so forth. These LoC systems provide a viable and low-cost platform for rapid, automated and accurate clinical diagnosis of various diseases including malaria, neglected tropical diseases (NTD) prevalent in the developing countries. Typically, a microfluidic-based chip implements one or more complex bioassays (bio protocols) by manipulating nanolitre or picoliter volume of fluids on a single chip of a few square centimeters in size.
