Hardware/Software Co-Design and Optimization for Cyberphysical Integration in Digital Microfluidic Biochips

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.

Introduction.- Error-Recovery in Cyberphysical Biochips.- Real-Time Error Recovery Using a Compact Dictionary.- Biochemistry Synthesis under Completion-Time Uncertainties in Fluidic Operations.- Optimization of On-Chip Polymerase Chain Reaction.- Pin-Count Minimization for Application-Independent Chips.- Pro-Limited Cyberphysical Microfluidic Biochip.- Conclusions.

Yan Luo received the Bachelor degree from Tsinghua University,Beijing, in 2010, and the Master and Ph.D. degrees from Duke University in North Carolina, in 2012 and 2013, respectively. Dr.Luo's research interests include hardware/software co-design for cyber-physical system, engineering data analysis and design/implementation of high-volume, fault-tolerant, scalable backend systems that process and manage petabytes of engineering data. Since obtaining her Ph.D. degree, Dr. Luo has worked in the IT industry in Silicon Valley. Currently as a Research Scientist at Sumo Logic Inc., Dr. Luo applies her expertise and talents of cyber-physical systems in the hybrid software and system research and machine data analytics with real-time monitor and control capabilities, creating next-generation large-scale computing systems and IT environment with high performance, scalability, and reliability. Dr. Luo has published 10 papers in refereed journals and conferences and authored one book chapter. Dr. Luo was invited as technique committee members and reviewers for more than 20 international conferences and journals.

Krishnendu Chakrabarty is the William H. Younger Distinguished Chair Professor of Engineering in the Department of Professor of Electrical and Computer Engineering and Professor of Computer Science at Duke University. He is a recipient of the National Science Foundation Early Faculty (CAREER) award, the Office of Naval Research Young Investigator award, the Humboldt Research Award from the Alexander von Humboldt Foundation, Germany, and 10 best paper awards at major IEEE conferences. Prof. Chakrabarty’s current research projects include: testing and design-for-testability of integrated circuits; digital microfluidics, biochips, and cyberphysical systems; optimization of digital print and enterprise systems. He is a Fellow of ACM, a Fellow of IEEE, and a Golden Core Member of the IEEE Computer Society.

Tsung-Yi Ho received his Ph.D. degrees in Electrical Engineering from National Taiwan University, Taipei, Taiwan, ROC, in 2005. Since 2007, he has been with the Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan, Taiwan, ROC, where he is currently an Associate Professor. His research interests include design automation for microfluidic biochips and nanometer integrated circuits. He has published several papers in top journals and conferences such as IEEE TCAD, ACM TODAES, ACM/IEEE DAC, IEEE/ACM ICCAD, ACM ISPD, and etc. He presented 8 tutorials and contributed 4 special sessions in ACM/IEEE conferences, all in design automations on biochips. He was the recipient of many research awards, such as Dr. Wu Ta-You Memorial Award of National Science Council (NSC) of Taiwan (the most prestigious award from NSC for junior researchers), Distinguished Young Scholar Award of Taiwan IC Design Society, Outstanding Young Electrical Engineer Award of Chinese Institute of Electrical Engineering, K. T. Li Research Award of Delta Electronics, ACM Taipei Chapter Young Researcher Award, IEEE Tainan Chapter Gold Member Award, the Invitational Fellowship of the Japan Society for the Promotion of Science (JSPS), Japan, and the Humboldt Research Fellowship from the Alexander von Humboldt Foundation, Germany. Currently, he serves as a Distinguished Visitor of the IEEE Computer Society, the Chair of IEEE Computer Society Tainan Chapter and an Associate Editor of ACM Journal on Emerging Technologies in Computing Systems and IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. He is a senior member of IEEE.