Dilution with Digital Microfluidic Biochips: How Unbalanced Splits Corrupt Target-Concentration

Sample preparation is an indispensable component of almost all biochemical protocols, and it involves, among others, making dilutions and mixtures of fluids in certain ratios. Recent microfluidic technologies offer suitable platforms for automating dilutions on-chip, and typically on a digital microfluidic biochip (DMFB), a sequence of (1:1) mix-split operations is performed on fluid droplets to achieve the target concentration factor (CF) of a sample. An (1:1) mixing model ideally comprises mixing of two unit-volume droplets followed by a (balanced) splitting into two unit-volume daughter-droplets. However, a major source of error in fluidic operations is due to unbalanced splitting, where two unequal-volume droplets are produced following a split. Such volumetric split-errors occurring in different mix-split steps of the reaction path often cause a significant drift in the target-CF of the sample, the precision of which cannot be compromised in life-critical assays. In order to circumvent this problem, several error-recovery or error-tolerant techniques have been proposed recently for DMFBs. Unfortunately, the impact of such fluidic errors on a target-CF and the dynamics of their behavior have not yet been rigorously analyzed. In this work, we investigate the effect of multiple volumetric split-errors on various target-CFs during sample preparation. We also perform a detailed analysis of the worst-case scenario, i.e., the condition when the error in a target-CF is maximized. This analysis may lead to the development of new techniques for error-tolerant sample preparation with DMFBs without using any sensing operation.

[1]  William Thies,et al.  Abstraction layers for scalable microfluidic biocomputing , 2008, Natural Computing.

[2]  Krishnendu Chakrabarty,et al.  Integrated control-path design and error recovery in the synthesis of digital microfluidic lab-on-chip , 2010, JETC.

[3]  Sudip Roy,et al.  Dilution and Mixing Algorithms for Flow-Based Microfluidic Biochips , 2017, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[4]  Chia-Hung Liu,et al.  Reactant Minimization in Sample Preparation on Digital Microfluidic Biochips , 2015, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[5]  Krishnendu Chakrabarty,et al.  A Reagent-Saving Mixing Algorithm for Preparing Multiple-Target Biochemical Samples Using Digital Microfluidics , 2012, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[6]  Chia-Hung Liu,et al.  Reactant minimization during sample preparation on digital microfluidic biochips using skewed mixing trees , 2012, 2012 IEEE/ACM International Conference on Computer-Aided Design (ICCAD).

[7]  J. Baret,et al.  Electrowetting: from basics to applications , 2005 .

[8]  Krishnendu Chakrabarty,et al.  On-Chip Sample Preparation for Multiple Targets Using Digital Microfluidics , 2014, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[9]  Zhanwei Zhong Robust Sample Preparation on Low-Cost Digital Microfluidic Biochips , 2018 .

[10]  Krishnendu Chakrabarty,et al.  Error Recovery in Cyberphysical Digital Microfluidic Biochips , 2013, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[11]  Krishnendu Chakrabarty,et al.  Error-Correcting Sample Preparation with Cyberphysical Digital Microfluidic Lab-on-Chip , 2016, ACM Trans. Design Autom. Electr. Syst..

[12]  Robert Wille,et al.  Storage-aware sample preparation using flow-based microfluidic Labs-on-Chip , 2018, 2018 Design, Automation & Test in Europe Conference & Exhibition (DATE).

[13]  Robert Wille,et al.  Error-Oblivious Sample Preparation With Digital Microfluidic Lab-on-Chip , 2019, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[14]  J. Todd,et al.  Evaluation of single nucleotide polymorphism typing with invader on PCR amplicons and its automation. , 2000, Genome research.

[15]  Paul Pop,et al.  Redundancy optimization for error recovery in digital microfluidic biochips , 2015, Des. Autom. Embed. Syst..

[16]  Krishnendu Chakrabarty,et al.  Real-Time Error Recovery in Cyberphysical Digital-Microfluidic Biochips Using a Compact Dictionary , 2013, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[17]  Krishnendu Chakrabarty,et al.  Design Tools for Digital Microfluidic Biochips: Toward Functional Diversification and More Than Moore , 2010, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[18]  Fei Su,et al.  Digital Microfluidic Biochips - Synthesis, Testing, and Reconfiguration Techniques , 2006 .

[19]  Krishnendu Chakrabarty,et al.  Optimization of Dilution and Mixing of Biochemical Samples Using Digital Microfluidic Biochips , 2010, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[20]  Krishnendu Chakrabarty,et al.  Biochip Synthesis and Dynamic Error Recovery for Sample Preparation Using Digital Microfluidics , 2014, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

[21]  R. Fair,et al.  An integrated digital microfluidic lab-on-a-chip for clinical diagnostics on human physiological fluids. , 2004, Lab on a chip.

[22]  Krishnendu Chakrabarty,et al.  Biochemistry Synthesis on a Cyberphysical Digital Microfluidics Platform Under Completion-Time Uncertainties in Fluidic Operations , 2014, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.