Patents by Inventor Jonathan Schultz
Jonathan Schultz has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
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Patent number: 9776146Abstract: An automated on-touch template bead preparation system is provided and includes a membrane-based emulsion generation subsystems, an emulsion PCR (ePCR) thermocycling plate and subsystem, and a continuous centrifugation emulsion breaking and templated bead collection subsystem. The emulsion generation subsystem provides uniformity in the preparation of an inverse emulsion and may be used to create large or small volume inverse emulsions rapidly and reproducibly. An emulsion-generating device is provided that can supply a continuous stream of an inverse emulsion to a thermocycling subsystem, in automated fashion. The ePCR subsystem can continuously thermocycle an inverse emulsion passed therethrough and includes static temperature zones and a consumable thermocycling plate. The continuous centrifugation subsystem can continuously break a thermally cycled inverse emulsion and collect template beads formed in the aqueous microreactor droplets of the inverse emulsion.Type: GrantFiled: April 27, 2015Date of Patent: October 3, 2017Assignee: Life Technologies CorporationInventors: Jonathan Schultz, John Nobile, Brian Reed, Prasanna Krishnan Thwar, Todd Roswech
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Patent number: 9714719Abstract: A removable independent steam jacket for a bottom outlet valve of a railroad tank car able to connect to an existing bottom outlet valve, with or without an integral steam jacket, in a field environment without having to take the tank car in for repairs having a partially annular hollow base with a rectangular cross-section and a plurality of pipes connected to the base extending away from the bottom of the base. The removable steam jacket also has a plurality of mounting brackets connected to the bottom the base for installing and removing it from the bottom outlet valve.Type: GrantFiled: September 24, 2015Date of Patent: July 25, 2017Assignee: Union Tank Car CompanyInventors: Peter J. Douglas, Gary C. Walter, Joe Perez, Jonathan Schultz, Nathan Chilton, Keith Peltason
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Publication number: 20170191571Abstract: A valve for regulating fluid flow includes a housing base defining a lower cavity and comprising a pinch structure within the lower cavity, a gas inlet providing external access to the lower cavity, a base fluid inlet, and a base fluid outlet. A housing cover defines an upper cavity and comprises a cover fluid inlet and a cover fluid outlet. The cover fluid inlet is in fluidic communication with the base fluid outlet between the upper cavity and the lower cavity, and the cover fluid outlet provides external access from the upper cavity. A diaphragm is disposed between the housing base and the housing cover. A pinch plate is disposed in the lower cavity and comprises a pinch point disposed opposite the pinch structure. A pinch tube is in fluidic communication between the base fluid inlet and the base fluid outlet in the lower cavity.Type: ApplicationFiled: January 17, 2017Publication date: July 6, 2017Inventor: Jonathan Schultz
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Publication number: 20170145497Abstract: Methods and apparatus relating to very large scale FET arrays for analyte measurements. ChemFET (e.g., ISFET) arrays may be fabricated using conventional CMOS processing techniques based on improved FET pixel and array designs that increase measurement sensitivity and accuracy, and at the same time facilitate significantly small pixel sizes and dense arrays. Improved array control techniques provide for rapid data acquisition from large and dense arrays. Such arrays may be employed to detect a presence and/or concentration changes of various analyte types in a wide variety of chemical and/or biological processes. In one example, chemFET arrays facilitate DNA sequencing techniques based on monitoring changes in the concentration of inorganic pyrophosphate (PPi), hydrogen ions, and nucleotide triphosphates.Type: ApplicationFiled: September 26, 2016Publication date: May 25, 2017Inventors: Jonathan M. ROTHBERG, Wolfgang HINZ, Kim L. JOHNSON, James BUSTILLO, John LEAMON, Jonathan SCHULTZ
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Publication number: 20170121766Abstract: A method of sequencing a polynucleotide strand can include providing the polynucleotide strand with a primer annealed thereto and a polymerase operably bound to the polynucleotide strand; successively exposing the polynucleotide strand to the flow of four different dNTPs according to a first predetermined ordering; and successively exposing the polynucleotide strand to the flow of four different dNTPs according to a second predetermined ordering, wherein the second predetermined ordering is different from the first predetermined ordering.Type: ApplicationFiled: January 12, 2017Publication date: May 4, 2017Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Jonathan SCHULTZ, John DAVIDSON
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Publication number: 20170089479Abstract: A removable independent steam jacket for a bottom outlet valve of a railroad tank car able to connect to an existing bottom outlet valve, with or without an integral steam jacket, in a field environment without having to take the tank car in for repairs having a partially annular hollow base with a rectangular cross-section and a plurality of pipes connected to the base extending away from the bottom of the base. The removable steam jacket also has a plurality of mounting brackets connected to the bottom the base for installing and removing it from the bottom outlet valve.Type: ApplicationFiled: September 24, 2015Publication date: March 30, 2017Inventors: Peter J. Douglas, Gary C. Walter, Joe Perez, Jonathan Schultz, Nathan Chilton, Keith Peltason
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Patent number: 9605308Abstract: A method for sequencing a polynucleotide strand by using sequencing-by-synthesis techniques. To address the problem of incomplete extension (IE) and/or carry forward (CF) errors that can occur in sequencing-by-synthesis reactions, an alternative flow ordering of dNTPs is used. In contrast to conventional flow orderings, the dNTPs are flowed in an ordering that is not a continuous repeat of an ordering of the four different dNTPs. This alternate flow ordering may reduce the loss of phasic synchrony in the population of template polynucleotide strands that result from IE and/or CF errors.Type: GrantFiled: November 29, 2012Date of Patent: March 28, 2017Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: Jonathan Schultz, John Davidson
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Publication number: 20170066642Abstract: A fluidic interconnect includes a first interface including a liquid port, a gas port, and a cradle; a second interface including a liquid port, a gas port, and a swing bar to engage the cradle, a weight of a container attached to one of the first or second interfaces to drive the liquid port of the first interface into connection with the liquid port of the second interface and the gas port of the first interface into connection with the gas port of the second interface.Type: ApplicationFiled: September 8, 2016Publication date: March 9, 2017Inventors: Todd Roswech, Jonathan SCHULTZ, Chun HO
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Publication number: 20170056881Abstract: The invention provides a passive fluidics circuit for directing different fluids to a common volume, such as a reaction chamber or flow cell, without intermixing or cross contamination. The direction and rate of flow through junctions, nodes and passages of the fluidics circuit are controlled by the states of upstream valves (e.g. opened or closed), differential fluid pressures at circuit inlets or upstream reservoirs, flow path resistances, and the like. Free diffusion or leakage of fluids from unselected inlets into the common outlet or other inlets at junctions or nodes is prevented by the flow of the selected inlet fluid, a portion of which sweeps by the inlets of unselected fluids and exits the fluidics circuit by waste ports, thereby creating a barrier against undesired intermixing with the outlet flow through leakage or diffusion. The invention is particularly advantageous in apparatus for performing sensitive multistep reactions, such as pH-based DNA sequencing reactions.Type: ApplicationFiled: November 10, 2016Publication date: March 2, 2017Inventors: Jonathan Schultz, David Marran
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Patent number: 9579654Abstract: A valve for regulating fluid flow includes a housing base defining a lower cavity and comprising a pinch structure within the lower cavity, a gas inlet providing external access to the lower cavity, a base fluid inlet, and a base fluid outlet. A housing cover defines an upper cavity and comprises a cover fluid inlet and a cover fluid outlet. The cover fluid inlet is in fluidic communication with the base fluid outlet between the upper cavity and the lower cavity, and the cover fluid outlet provides external access from the upper cavity. A diaphragm is disposed between the housing base and the housing cover. A pinch plate is disposed in the lower cavity and comprises a pinch point disposed opposite the pinch structure. A pinch tube is in fluidic communication between the base fluid inlet and the base fluid outlet in the lower cavity.Type: GrantFiled: May 24, 2016Date of Patent: February 28, 2017Assignee: Life Technologies CorporationInventor: Jonathan Schultz
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Publication number: 20170044602Abstract: A system and machine readable medium for nucleic acid sequencing includes disposing template polynucleotide strands in defined spaces disposed on a sensor array, at least some of the template polynucleotide strands having a sequencing primer and a polymerase operably bound therewith; exposing the template polynucleotide strands to a series of flows of nucleotide species flowed according to a predetermined ordering; and determining, for each of the series of flows of nucleotide species, how many nucleotide incorporations occurred for that particular flow to determine a predicted sequence of nucleotides corresponding to the template polynucleotide strands, wherein the predetermined ordering (a) is not a series of consecutive repetitions of a 4-flow permutation of four different nucleotide species, (b) is not specifically tailored to a particular combination of a particular template polynucleotide strand to be sequenced and a particular sequencing primer to be used, and (c) comprises a phase-protecting flow ordeType: ApplicationFiled: August 12, 2016Publication date: February 16, 2017Applicant: Life Technologies CorporationInventors: Earl HUBBELL, Jonathan SCHULTZ
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Patent number: 9550183Abstract: The invention provides a passive fluidics circuit for directing different fluids to a common volume, such as a reaction chamber or flow cell, without intermixing or cross contamination. The direction and rate of flow through junctions, nodes and passages of the fluidics circuit are controlled by the states of upstream valves (e.g. opened or closed), differential fluid pressures at circuit inlets or upstream reservoirs, flow path resistances, and the like. Free diffusion or leakage of fluids from unselected inlets into the common outlet or other inlets at junctions or nodes is prevented by the flow of the selected inlet fluid, a portion of which sweeps by the inlets of unselected fluids and exits the fluidics circuit by waste ports, thereby creating a barrier against undesired intermixing with the outlet flow through leakage or diffusion. The invention is particularly advantageous in apparatus for performing sensitive multistep reactions, such as pH-based DNA sequencing reactions.Type: GrantFiled: May 30, 2014Date of Patent: January 24, 2017Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: Jonathan Schultz, David Marran
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Publication number: 20170014784Abstract: An automated template bead preparation system is provided and includes a membrane-based emulsion generation subsystems, a thermal plate and subsystem, and a continuous centrifugation emulsion breaking and templated bead collection subsystem. The emulsion generation subsystem provides uniformity in the preparation of an inverse emulsion and may be used to create large or small volume inverse emulsions rapidly and reproducibly. An emulsion-generating device is provided that can supply a continuous stream of an inverse emulsion to a thermal subsystem, in automated fashion. The thermal subsystem can treat an inverse emulsion passed therethrough. The continuous centrifugation subsystem can continuously break a thermally cycled inverse emulsion and collect template beads formed in the aqueous microreactor droplets of the inverse emulsion.Type: ApplicationFiled: September 30, 2016Publication date: January 19, 2017Inventors: Jonathan SCHULTZ, John Nobile, Brian Reed, Prasanna Thwar, Todd Roswech, John Andrew Sheridan
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Patent number: 9458502Abstract: Methods and apparatus relating to very large scale FET arrays for analyte measurements. ChemFET (e.g., ISFET) arrays may be fabricated using conventional CMOS processing techniques based on improved FET pixel and array designs that increase measurement sensitivity and accuracy, and at the same time facilitate significantly small pixel sizes and dense arrays. Improved array control techniques provide for rapid data acquisition from large and dense arrays. Such arrays may be employed to detect a presence and/or concentration changes of various analyte types in a wide variety of chemical and/or biological processes. In one example, chemFET arrays facilitate DNA sequencing techniques based on monitoring changes in the concentration of inorganic pyrophosphate (PPi), hydrogen ions, and nucleotide triphosphates.Type: GrantFiled: August 13, 2013Date of Patent: October 4, 2016Assignee: Life Technologies CorporationInventors: Jonathan M. Rothberg, Wolfgang Hinz, Kim L. Johnson, James Bustillo, John Leamon, Jonathan Schultz
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Patent number: 9458485Abstract: An automated template bead preparation system is provided and includes a membrane-based emulsion generation subsystems, a thermal plate and subsystem, and a continuous centrifugation emulsion breaking and templated bead collection subsystem. The emulsion generation subsystem provides uniformity in the preparation of an inverse emulsion and may be used to create large or small volume inverse emulsions rapidly and reproducibly. An emulsion-generating device is provided that can supply a continuous stream of an inverse emulsion to a thermal subsystem, in automated fashion. The thermal subsystem can treat an inverse emulsion passed therethrough. The continuous centrifugation subsystem can continuously break a thermally cycled inverse emulsion and collect template beads formed in the aqueous microreactor droplets of the inverse emulsion.Type: GrantFiled: July 14, 2015Date of Patent: October 4, 2016Assignee: Life Technologies CorporationInventors: Jonathan Schultz, John Nobile, Brian Reed, Prasanna Krishnan Thwar, Todd Roswech, John Andrew Sheridan
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Publication number: 20160263578Abstract: A valve for regulating fluid flow includes a housing base defining a lower cavity and comprising a pinch structure within the lower cavity, a gas inlet providing external access to the lower cavity, a base fluid inlet, and a base fluid outlet. A housing cover defines an upper cavity and comprises a cover fluid inlet and a cover fluid outlet. The cover fluid inlet is in fluidic communication with the base fluid outlet between the upper cavity and the lower cavity, and the cover fluid outlet provides external access from the upper cavity. A diaphragm is disposed between the housing base and the housing cover. A pinch plate is disposed in the lower cavity and comprises a pinch point disposed opposite the pinch structure. A pinch tube is in fluidic communication between the base fluid inlet and the base fluid outlet in the lower cavity.Type: ApplicationFiled: May 24, 2016Publication date: September 15, 2016Inventor: Jonathan SCHULTZ
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Patent number: 9428807Abstract: A method for nucleic acid sequencing includes disposing template polynucleotide strands in defined spaces on a sensor array, at least some of the template polynucleotide strands having a sequencing primer and a polymerase operably bound therewith; exposing the template polynucleotide strands to a series of flows of nucleotide species flowed according to a predetermined ordering; and determining, for each of the series of flows of nucleotide species, how many nucleotide incorporations occurred for that particular flow to determine a predicted sequence of nucleotides corresponding to the template polynucleotide strands, wherein the predetermined ordering (a) is not a series of consecutive repetitions of a 4-flow permutation of four different nucleotide species, (b) is not specifically tailored to a particular combination of a particular template polynucleotide strand to be sequenced and a particular sequencing primer to be used, and (c) comprises a phase-protecting flow ordering.Type: GrantFiled: April 5, 2012Date of Patent: August 30, 2016Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: Earl Hubbell, Jonathan Schultz
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Patent number: 9416413Abstract: A method for sequencing a polynucleotide strand by using sequencing-by-synthesis techniques. To address the problem of incomplete extension (IE) and/or carry forward (CF) errors that can occur in sequencing-by-synthesis reactions, an alternative flow ordering of dNTPs is used. In contrast to conventional flow orderings, the dNTPs are flowed in an ordering that is not a continuous repeat of an ordering of the four different dNTPs. This alternate flow ordering may reduce the loss of phasic synchrony in the population of template polynucleotide strands that result from IE and/or CF errors.Type: GrantFiled: April 9, 2013Date of Patent: August 16, 2016Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: Jonathan Schultz, John Davidson
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Publication number: 20160230214Abstract: An apparatus includes a robotic system providing movement in three orthogonal directions to an arm operable to receive a pipette tip and to facilitate movement of fluid into and out of the pipette tip. In addition, the apparatus can include a tray for receiving pipette tips, receptacles for receiving tubes, an apparatus for forming an emulsion, a device for forming particles that include copies of the polynucleotide, a device for enriching the particles and an apparatus for loading such particles onto a sensor array. The apparatus can further include receptacles for holding containers of reagent solutions. Optionally, the robot can include a gripper arm in addition to the pipette receiving arm.Type: ApplicationFiled: April 20, 2016Publication date: August 11, 2016Inventors: Kristopher BARBEE, Ryan JONES, Sean MCCUSKER, Maximilian CARPINO, John LEAMON, Jonathan SCHULTZ
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Patent number: 9375716Abstract: A valve for regulating fluid flow includes a housing base defining a lower cavity and comprising a pinch structure within the lower cavity, a gas inlet providing external access to the lower cavity, a base fluid inlet, and a base fluid outlet. A housing cover defines an upper cavity and comprises a cover fluid inlet and a cover fluid outlet. The cover fluid inlet is in fluidic communication with the base fluid outlet between the upper cavity and the lower cavity, and the cover fluid outlet provides external access from the upper cavity. A diaphragm is disposed between the housing base and the housing cover. A pinch plate is disposed in the lower cavity and comprises a pinch point disposed opposite the pinch structure. A pinch tube is in fluidic communication between the base fluid inlet and the base fluid outlet in the lower cavity.Type: GrantFiled: June 16, 2015Date of Patent: June 28, 2016Assignee: Life Technologies CorporationInventor: Jonathan Schultz