Krishnendu Chakrabarty - Digital Microfluidic Biochips: From Manipulating Droplets to Quantitative Gene-Expression Analysis
Advances in microfluidics have led to the emergence of biochips for automating laboratory procedures in molecular biology. These devices enable the precise control of nanoliter volumes of biochemical samples and reagents. As a result, non-traditional biomedical applications and markets (e.g., high-throughout DNA sequencing, portable and point-of-care clinical diagnostics, protein crystallization for drug discovery), and fundamentally new uses are opening up for ICs and systems. This lecture will first introduce electrowetting-based digital microfludic biochips and provide an overview of market drivers such as immunoassays and DNA sequencing. The audience will next learn about design automation and reconfiguration aspects of microfluidic biochips. Synthesis tools will be described to map assay protocols from the lab bench to a droplet-based microfluidic platform and generate an optimized schedule of bioassay operations, the binding of assay operations to functional units, and the layout and droplet-flow paths for the biochip. The role of the digital microfluidic platform as a “programmable and reconfigurable processor” for biochemical applications will be highlighted. The speaker will also describe dynamic adaptation of bioassays through cyberphysical system integration and sensor-driven on-chip error recovery. Finally, the speaker will highlight recent advances in utilizing cyberphysical integration for quantitative gene-expression analysis. This framework is based on a real-time resource-allocation algorithm that responds promptly to decisions about the protocol flow received from a firmware layer.
Krishnendu Chakrabarty received the B. Tech. degree from the Indian Institute of Technology, Kharagpur, in 1990, and the M.S.E. and Ph.D. degrees from the University of Michigan, Ann Arbor, in 1992 and 1995, respectively. He is now the William H. Younger Distinguished Professor of Engineering in the Department of Electrical and Computer Engineering and Professor of Computer Science at Duke University. He also serves as Director of Graduate Studies for Electrical and Computer Engineering. Professor Chakrabarty is a recipient of the NSF CAREER award, the ONR Young Investigator award, the Humboldt Research Award, the IEEE Transactions on CAD Donald O. Pederson Best Paper award (2015), and 12 best paper awards at major IEEE conferences. He is also a recipient of the IEEE Computer Society Technical Achievement Award (2015) and the Distinguished Alumnus Award from the Indian Institute of Technology, Kharagpur (2014).
Professor Chakrabarty’s current research projects include: testing and design-for-testability of integrated circuits; microfluidic biochips,and cyberphysical systems; optimization of enterprise systems and smart manufacturing. Prof. Chakrabarty is a Fellow of ACM, a Fellow of IEEE, and a Golden Core Member of the IEEE Computer Society. He holds nine US patents, with several patents pending. He was a 2009 Invitational Fellow of the Japan Society for the Promotion of Science (JSPS). He is a recipient of the 2008 Duke University Graduate School Dean’s Award for excellence in mentoring, and the 2010 Capers and Marion McDonald Award for Excellence in Mentoring and Advising, Pratt School of Engineering, Duke University.
Professor Chakrabarty served as the Editor-in-Chief of IEEE Design & Test of Computers during 2010-2012 and ACM Journal on Emerging Technologies in Computing Systems during 2010-2015. Currently he serves as the Editor-in-Chief of IEEE Transactions on VLSI Systems.