Abstract: The systems and methods of the invention provide a guided approach to pyrosequencing (i.e., hybrid pyrosequencing). A de novo nucleic acid sequence may compared to a library of possible results and the next nucleotide to be dispensed is selected based on the comparison of the de novo sequence and the library of possible results. In another example, at least the first nucleotide to be dispensed is selected based on a query of a database(s) of non-sequence parameters (e.g., incidence of infection, diagnostic symptoms, sample source) and subsequent dispensations determined based on a comparison of the de novo sequence and the library of possible results (e.g., candidate sequences). The systems and methods of the invention may be performed using a droplet actuator.

Abstract: The present invention provides modified droplet actuator systems, software, and software-executed methods for use in droplet actuator operation and droplet actuator systems that are configured and programmed to execute such software. The invention provides a computer readable medium storing processor executable code for performing a method, the method comprising receiving a selection of a function to be performed by a droplet actuator, associating the function to a predefined electrode element, associating the predefined electrode element to a grouping of one or more electrodes that perform the function, and adding the grouping of one or more electrodes to an electronic layout of the droplet actuator.

Abstract: Molecular adsorption to the microfluidic device surfaces can be passively and actively mitigated by mixing certain hydrophilic polymers (organic polymers with repeating hydrophilic groups—the preferred polymers being amphipathic surfactants—with the sample liquid during or prior to relevant microfluidic operations. Nonionic surfactants such as polyoxyethylene sorbitan monooleate and polyoxyethylene octyl phenyl ether are especially effective. High molecular weight polyethylene polymers are also effective. The hydrophilic polymers appear to prevent binding of the fouling molecules to the microfluidic by occupying the surface sites in place of the fouling molecules or by interacting with the fouling molecules to prevent binding of the fouling molecules the surface. When surface adsorption is thus mitigated, microfluidic devices can readily handle samples containing biomolecules to enable active sample concentration, filtering, washing, transport, mixing and other sample handling operations.

Abstract: The present invention is directed to droplet actuator systems, devices, and methods. In one embodiment, a microfluidic article of manufacture is provided. The microfluidic article of manufacture includes a first substrate; a second substrate separated from the first substrate to form a droplet operations gap; gap height setting spacers associated with the first and/or second substrate or situated between the first and second substrates; a spring forcing the second substrate against the gap height setting spacers, thereby establishing a substantially uniform gap height between the first and second substrates; and electrodes associated with the first and/or second substrate and configured to conduct droplet operations in the droplet operations gap.

Abstract: The present invention relates to droplet-based pyrosequencing including a method of identifying a base at a target position in a sample nucleic acid. The method includes: (a) providing a droplet microactuator including a first droplet including a sample nucleic acid immobilized on a bead; and (b) on the droplet microactuator: (i) contacting the first droplet with one or more reagent droplets to yield a second droplet, wherein the one or more reagent droplets include reagents for extending a double stranded portion of the sample nucleic acid by incorporating a nucleotide at the target position; (ii) splitting the second droplet to yield a third droplet including the bead and a fourth droplet lacking the bead; and (iii) assaying the third droplet to determine whether the nucleotide was incorporated at the target position.

Abstract: The invention provides a method of circulating magnetically responsive beads within a droplet in a droplet actuator. The invention also provides methods for splitting droplets. The invention, in one embodiment, makes use of a droplet actuator with top and bottom substrates, a plurality of magnetic fields respectively present proximate the top and bottom substrates, wherein at least one of the magnet fields is selectively alterable, and a plurality of droplet operations electrodes positioned along at least one of the top and bottom surfaces. A droplet is positioned between the top and bottom surfaces and at least one of the magnetic fields is selectively altered.

Abstract: A droplet actuator and method of providing a droplet comprising an target substance on the droplet actuator, and including discrete flow and continuous flow functionality. Discrete flow function is controlled by electrodes arranged for conducting droplet operations on a substrate surface. The continuous flow function includes a fluid path arranged for flowing a fluid therethrough. The discrete flow and continuous flow functions may be by a barrier, including a second fluid path through the barrier. The continuous flow function may include a capture surface comprising a component having an affinity for the target substance. Methods of the invention may include flowing a fluid comprising the target substance through the fluid path; capturing the target substance on the capture surface; and forming a droplet in the discrete flow region via the second fluid path and the electrodes comprising the captured target substance.

Abstract: On-board reagent storage, handling, and dispensing apparatuses and methods for droplet actuator systems are provided. In one embodiment, a fluidic analyzer is provided and includes a droplet actuator including a substrate including a plurality of electrodes configured to actuate a droplet and a reagent storage component in selective fluid communication with the droplet actuator and including a reagent configured to combine with a solvent at a time of use. In another embodiment, a method of conducting fluidic analysis is provided and includes storing a reagent within a reagent storage component in fluid communication with a droplet actuator including a plurality of electrodes configured to actuate a droplet and combining the reagent with a solvent at a time for use within the droplet actuator.

Abstract: A droplet actuator comprising a substrate comprising an electrode coupled to a voltage source, wherein the droplet actuator is configured such that when voltage is applied to the electrode, an electrostatic energy gradient is established at a surface of the substrate which causes a droplet to be transported in a direction established by the energy gradient. Related methods and other embodiments are also provided.

Abstract: The invention is directed to droplet actuator devices and assay methods. The invention includes assay methods of conducting an assay comprising combining a sample with an umbelliferyl derivative, wherein the sample potentially comprises an enzyme capable of cleaving the umbelliferyl derivative and where the umbelliferyl derivative comprises an umbelliferyl core modified with one or more modifying moieties.

Abstract: A method of conducting a droplet-based enzymatic assay is provided. The method generally makes use of a droplet actuator. A droplet comprising an enzyme of interest is provided on the droplet actuator along with a droplet comprising a substrate which is potentially modified in the presence of the enzyme. The method involves executing droplet operations on the droplet actuator to combine the droplets, thereby yielding an assay droplet, and detecting modification of the substrate by the enzyme in the assay droplet on the droplet actuator. The enzyme of interest may, for example, be a potentially mutated or improperly folded enzyme exhibiting altered enzyme activity as compared to a corresponding normal enzyme.

Abstract: The present invention relates to providing improved hydrogen peroxide assays, as well as droplet actuators for conducting such assays. The droplet actuators of the invention may be used to conduct droplet-based hydrogen peroxide assays. They may also be associated with detectors for analyzing the results of the hydrogen peroxide assays of the invention. They may be provided as components of systems which control droplet operations and/or detection for conducting the hydrogen peroxide assays. Measurement by the detector may be used to quantify the presence of an analyte in a sample.

Abstract: Aspects of embodiments of the invention relate to a simulator including a visual display capable of outputting to a user a display one or more effects of a command series selected and a system including a droplet microactuator electronically coupled to and controlled by a processor capable of executing instructions, the droplet microactuator including a substrate comprising electrodes for conducting droplet operations. Further aspects of embodiments of the invention relate to a droplet operations troubleshooting apparatus. Other aspects of embodiments of the invention relate to a computer implemented method of displaying simulated microactuator droplets.

Abstract: The invention is directed to droplet actuator devices and assay methods. The method may include immobilization of the enzymatic substrate including forming an inclusion complex with the substrate within an aqueous environment in contact with an oil.

Abstract: The invention is directed to a droplet actuator device and methods for integrating gel electrophoresis analysis with pre or post-analytical sample handling as well as other molecular analysis processes. Using digital microfluidics technology, the droplet actuator device and methods of the invention provide the ability to perform gel electrophoresis and liquid handling operations on a single integrated device. The integrated liquid handling operations may be used to prepare and deliver samples to the electrophoresis gel, capture and subsequently process products of the electrophoresis gel or perform additional assays on the same sample materials which are analyzed by gel electrophoresis. In one embodiment, one or more molecular assays, such as nucleic acid (e.g., DNA) quantification by real-time PCR, and one or more sample processing operations such as sample dilution is performed on a droplet actuator integrated with an electrophoresis gel.

Abstract: The present invention relates to a droplet-based affinity assay device and system. According to one embodiment, a droplet microactuator is provided and includes an antibody immobilized on a surface. According to another embodiment, a droplet microactuator is provided and includes a droplet on the droplet microactuator, the droplet comprising an antibody.

Abstract: The present invention provides modified droplet actuator systems, software, and software-executed methods for use in droplet actuator operation and droplet actuator systems that are configured and programmed to execute such software. An aspect of the software components of the invention is an interface description file for each hardware component of a microfluidics system that allows hardware components to be changed without modifying the program for performing droplet operations protocols. Another aspect of the software components of the invention is the establishment of electrode-to-electrode relationships and other aspects of droplet actuator configurations, which may be used when programming droplet operations protocols. Another aspect of the software components of the invention is a physical design library of predefined electrode elements that may be used by a droplet actuator designer when constructing a layout of electrodes.

Abstract: An integrated droplet actuator device and methods are provided for performing PCR amplification and high-resolution melting (HRM) analysis on a single droplet actuator. HRM analysis can be used in combination with PCR amplification for detection of sequence variations (e.g., single-nucleotide polymorphisms, nucleotide-repeat polymorphisms, mutation scanning and assessment of DNA methylation) within one or more genes of interest. The PCR amplicons can be fluorescently labeled during amplification using a saturating DNA intercalating fluorescent dye, a 5?-labeled primer, or labeled probes. Also provided are a droplet actuator device and methods for sample preparation using the droplet actuator and detection of sequence variations on the same droplet actuator.

Abstract: A method of determining a gap height in a droplet actuator including measuring an impedance between a droplet operations electrode of a first substrate in a droplet actuator and ground electrode of a second substrate in the droplet actuator, storing a lookup table that associates impedances to heights of gaps between the first substrate and the second substrate, querying the lookup table for the impedance measured between the droplet operations electrode of the first substrate and the ground electrode of the second substrate; and retrieving a height of a gap associated with the impedance.

Abstract: A droplet actuator and method of providing a droplet comprising an target substance on the droplet actuator, and including discrete flow and continuous flow functionality. Discrete flow function is controlled by electrodes arranged for conducting droplet operations on a substrate surface. The continuous flow function includes a fluid path arranged for flowing a fluid therethrough. The discrete flow and continuous flow functions may be by a barrier, including a second fluid path through the barrier. The continuous flow function may include a capture surface comprising a component having an affinity for the target substance. Methods of the invention may include flowing a fluid comprising the target substance through the fluid path; capturing the target substance on the capture surface; and forming a droplet in the discrete flow region via the second fluid path and the electrodes comprising the captured target substance.