Abstract
Preparing a sample with a specified concentration factor (CF) is an important step in automating biochemical laboratory protocols on a digital microfluidic biochip. In this paper, we address an open problem of sample preparation with a target CF in minimum number of mix/split steps when droplets of the same fluid are supplied with multiple CFs . We formulate this as a variant of the subset-sum problem and present a heuristic algorithm based on dynamic programming.
This work of S. Roy was supported by Microsoft Corporation and Microsoft Research India under the Microsoft Research India PhD Fellowship Award (2010-2014). The work of S. Ghoshal was supported in part by the Department of Science & Technology (DST) Women Scientists Scheme (WOS-A), 2009-2012. The work of K. Chakrabarty was supported in part by the US National Science Foundation under grants CCF-0914895 and CNS-1135853.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Chakrabarty, K., Xu, T.: Digital Microfluidic Biochips: Design and Optimization. CRC Press (2010)
Lin, C.C.Y., Chang, Y.W.: Cross-Contamination Aware Design Methodology for Pin-Constrained Digital Microfluidic Biochips. IEEE TCAD 30(6), 817–828 (2011)
Maftei, E., Pop, P., Madsen, J.: Routing-based Synthesis of Digital Microfluidic Biochips. Design Automation for Embedded Systems 16(1), 19–44 (2012)
Luo, Y., Chakrabarty, K., Ho, T.Y.: Error Recovery in Cyberphysical Digital Microfluidic Biochips. IEEE TCAD 32(1), 59–72 (2013)
Griffith, E.J., Akella, S., Goldberg, M.K.: Performance Characterization of a Reconfigurable Planar-Array Digital Microfluidic System. IEEE TCAD 25(2), 345–357 (2006)
Thies, W., Urbanski, J.P., Thorsen, T., Amarasinghe, S.: Abstraction Layers for Scalable Microfluidic Biocomputing. Natural Computing 7(2), 255–275 (2008)
Roy, S., Bhattacharya, B.B., Chakrabarty, K.: Optimization of Dilution and Mixing of Biochemical Samples using Digital Microfluidic Biochips. IEEE TCAD 29(11), 1696–1708 (2010)
Roy, S., Bhattacharya, B.B., Chakrabarty, K.: Waste-Aware Dilution and Mixing of Biochemical Samples with Digital Microfluidic Biochips. In: Proc. of the IEEE/ACM DATE, pp. 1059–1064 (2011)
Roy, S., Bhattacharya, B.B., Chakrabarti, P.P., Chakrabarty, K.: Layout-Aware Solution Preparation for Biochemical Analysis on a Digital Microfluidic Biochip. In: Proc. of the IEEE VLSID, pp. 171–176 (2011)
Hsieh, Y.L., Ho, T.Y., Chakrabarty, K.: On-Chip Biochemical Sample Preparation Using Digital Microfluidics. In: Proc. of the IEEE BioCAS (2011)
Hsieh, Y.L., Ho, T.Y., Chakrabarty, K.: Design Methodology for Sample Preparation on Digital Microfluidic Biochips. In: Proc. of the IEEE ICCD, pp. 189–194 (2012)
Hsieh, Y.L., Ho, T.Y., Chakrabarty, K.: A Reagent-Saving Mixing Algorithm for Preparing Multiple-Target Biochemical Samples Using Digital Microfluidics. IEEE TCAD 31(11), 1656–1669 (2012)
Mitra, D., Roy, S., Chakrabarty, K., Bhattacharya, B.: On-Chip Sample Preparation with Multiple Dilutions Using Digital Microfluidics. In: Proc. of IEEE ISVLSI, pp. 314–319 (2012)
Huang, J.D., Liu, C.H., Chiang, T.W.: Reactant Minimization during Sample Preparation on Digital Microfluidic Biochips using Skewed Mixing Trees. In: Proc. of IEEE/ACM ICCAD, pp. 377–384 (2012)
Kumar, S., Roy, S., Chakrabarti, P.P., Bhattacharya, B.B., Chakrabarty, K.: Efficient Mixture Preparation on Digital Microfluidic Biochips. In: IEEE DDECS, pp. 205–210 (2013)
Kleinberg, J., Tardos, E.: Algorithm Design. Addison Wesley (2005)
Luo, L., Akella, S.: Optimal Scheduling of Biochemical Analyses on Digital Microfluidic Systems. IEEE TASE 8(1), 216–227 (2011)
Garey, M.R., Johnson, D.S.: Computers and Intractability, A Guide to the Theory of NP-Completeness. W.H. Freeman and Company (1979)
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2013 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Roy, S., Bhattacharya, B.B., Ghoshal, S., Chakrabarty, K. (2013). On-Chip Dilution from Multiple Concentrations of a Sample Fluid Using Digital Microfluidics. In: Gaur, M.S., Zwolinski, M., Laxmi, V., Boolchandani, D., Sing, V., Sing, A.D. (eds) VLSI Design and Test. Communications in Computer and Information Science, vol 382. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-42024-5_33
Download citation
DOI: https://doi.org/10.1007/978-3-642-42024-5_33
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-42023-8
Online ISBN: 978-3-642-42024-5
eBook Packages: Computer ScienceComputer Science (R0)