Patents by Inventor Mark BEAUCHEMIN
Mark BEAUCHEMIN 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: 11959074Abstract: A method for sequencing a target polynucleotide includes detecting a first series of nucleotide incorporations complementary to at least a portion of the target polynucleotide. The first series of nucleotide incorporations forms a first complementary polynucleotide. The target nucleotide is secured to a substrate disposed in a sequencing zone of an assembly. The method further includes moving the substrate to which the target nucleotide is secured to a templating zone of the assembly; removing the first complementary polynucleotide when the substrate is disposed at the templating zone of the assembly, the target polynucleotide remaining secured to the substrate; following the removing, moving the substrate to which the target polynucleotide is secured to the sequencing zone; and detecting a second series of nucleotide incorporations complementary to at least a portion of the target polynucleotide, the second series of nucleotide incorporations forming a second complementary polynucleotide.Type: GrantFiled: November 12, 2021Date of Patent: April 16, 2024Inventors: Chiu Tai Andrew Wong, Kylan Szeto, Shanti Shankar, Mark Beauchemin
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Patent number: 11768171Abstract: A method, computer program product, and system are provided to calibrate a sensor array with a plurality of sensors. The method can include sweeping a voltage of a reference electrode from a first voltage to a second voltage, where the reference electrode is in fluid communication with the sensor array. The output voltage of each of the plurality of sensors can be monitored at one or more voltages within the first and second voltages. An overall average gain of the plurality of sensors can be calculated at each of the one or more voltages. Further, an acquisition window for the sensor array can be determined. The acquisition window can include a maximum distribution of sensors that provides a maximal overall average gain at a particular reference electrode voltage.Type: GrantFiled: October 5, 2020Date of Patent: September 26, 2023Assignee: Life Technologies CorporationInventors: Todd Rearick, Melville Davey, Mark Beauchemin
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Publication number: 20220154176Abstract: A method for sequencing a target polynucleotide includes detecting a first series of nucleotide incorporations complementary to at least a portion of the target polynucleotide. The first series of nucleotide incorporations forms a first complementary polynucleotide. The target nucleotide is secured to a substrate disposed in a sequencing zone of an assembly. The method further includes moving the substrate to which the target nucleotide is secured to a templating zone of the assembly; removing the first complementary polynucleotide when the substrate is disposed at the templating zone of the assembly, the target polynucleotide remaining secured to the substrate; following the removing, moving the substrate to which the target polynucleotide is secured to the sequencing zone; and detecting a second series of nucleotide incorporations complementary to at least a portion of the target polynucleotide, the second series of nucleotide incorporations forming a second complementary polynucleotide.Type: ApplicationFiled: November 12, 2021Publication date: May 19, 2022Inventors: Chiu Tai Andrew WONG, Kylan SZETO, Shanti SHANKAR, Mark BEAUCHEMIN
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Publication number: 20210116414Abstract: A method, computer program product, and system are provided to calibrate a sensor array with a plurality of sensors. The method can include sweeping a voltage of a reference electrode from a first voltage to a second voltage, where the reference electrode is in fluid communication with the sensor array. The output voltage of each of the plurality of sensors can be monitored at one or more voltages within the first and second voltages. An overall average gain of the plurality of sensors can be calculated at each of the one or more voltages. Further, an acquisition window for the sensor array can be determined. The acquisition window can include a maximum distribution of sensors that provides a maximal overall average gain at a particular reference electrode voltage.Type: ApplicationFiled: October 5, 2020Publication date: April 22, 2021Applicant: Life Technologies CorporationInventors: Todd REARICK, Melville DAVEY, Mark BEAUCHEMIN
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Patent number: 10809226Abstract: A method, computer program product, and system are provided to calibrate a sensor array with a plurality of sensors. The method can include sweeping a voltage of a reference electrode from a first voltage to a second voltage, where the reference electrode is in fluid communication with the sensor array. The output voltage of each of the plurality of sensors can be monitored at one or more voltages within the first and second voltages. An overall average gain of the plurality of sensors can be calculated at each of the one or more voltages. Further, an acquisition window for the sensor array can be determined. The acquisition window can include a maximum distribution of sensors that provides a maximal overall average gain at a particular reference electrode voltage.Type: GrantFiled: March 13, 2018Date of Patent: October 20, 2020Assignee: Life Technologies CorporationInventors: Todd Rearick, Melville Davey, Mark Beauchemin
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Publication number: 20200319244Abstract: In one implementation, a method for operating an apparatus is described. The method includes applying a bias voltage to place a transistor of a reference sensor in a known state. The reference sensor is in an array of sensors that further includes a chemical sensor coupled to a reaction region for receiving at least one reactant. The method further includes acquiring an output signal from the reference sensor in response to the applied bias voltage. The method further includes determining a defect associated with the array if the output signal does not correspond to the known state.Type: ApplicationFiled: March 6, 2020Publication date: October 8, 2020Inventor: Mark Beauchemin
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Patent number: 10598723Abstract: In one implementation, a method for operating an apparatus is described. The method includes applying a bias voltage to place a transistor of a reference sensor in a known state, the reference sensor in an array of sensors that further includes a chemical sensor coupled to a reaction region for receiving at least one reactant. The method further includes acquiring an output signal from the reference sensor in response to the applied bias voltage, and determining a defect associated with the array if the output signal does not correspond to the known state.Type: GrantFiled: August 19, 2015Date of Patent: March 24, 2020Assignee: LIFE TECHNOLOGIES CORPORATIONInventor: Mark Beauchemin
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Publication number: 20200075130Abstract: A method for user guided initiating of an instrument includes receiving a run plan via a user interface of the instrument; indicating on the user interface, based on the run plan, a consumable to be provided to the instrument; detecting the presence of the consumable using a vision system; and indicating the presence of the consumable via the user interface.Type: ApplicationFiled: August 16, 2019Publication date: March 5, 2020Inventors: Shanti SHANKAR, Sean ZIMMERMAN, Mark BEAUCHEMIN, John THOMPSON
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Patent number: 10451585Abstract: A method is provided to sample a sensor array. The method can include measuring a waveform associated with a chemical event occurring on the sensor array. The waveform can include at least one region associated with expected measured values and at least one region associated with unpredictable measured values. The method can also include applying a first frame averaging to the at least one region associated with the expected measured values. Here, a first number of frames can be included in the first frame averaging. Further, the method can include applying a second frame averaging to the at least one region associated with the unpredictable measured values, where a second number of frames can be included in the second frame averaging. The second number of frames can be less than the first number of frames.Type: GrantFiled: October 29, 2015Date of Patent: October 22, 2019Assignee: Life Technologies CorporationInventors: Todd Rearick, Mark Beauchemin
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Patent number: 10365321Abstract: An apparatus including an array of sensors including a plurality of chemical sensors and a plurality of reference sensors, each chemical sensor coupled to a corresponding reaction region for receiving at least one reactant, and each reference sensor comprising a field effect transistor having a gate coupled to a corresponding reference line and an access circuit for accessing the chemical sensors and the reference sensors and a controller to apply bias voltages to the reference lines to select corresponding reference sensors, acquire output signals from the selected reference sensors, and identify one or more defects in the access circuit based on differences between the acquired output signals and expected output signals.Type: GrantFiled: August 19, 2015Date of Patent: July 30, 2019Assignee: LIFE TECHNOLOGIES CORPORATIONInventor: Mark Beauchemin
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Publication number: 20190041411Abstract: A method of preparing a sequencing device includes determining a sensitivity of a pH of a solution to a first reagent, determining an amount of the first reagent to add to the solution to approach a target pH, adding the amount of the first reagent to the solution, and diluting a nucleotide solution with the solution.Type: ApplicationFiled: August 9, 2018Publication date: February 7, 2019Inventors: David MARRAN, Mark BEAUCHEMIN
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Publication number: 20180313786Abstract: A method, computer program product, and system are provided to calibrate a sensor array with a plurality of sensors. The method can include sweeping a voltage of a reference electrode from a first voltage to a second voltage, where the reference electrode is in fluid communication with the sensor array. The output voltage of each of the plurality of sensors can be monitored at one or more voltages within the first and second voltages. An overall average gain of the plurality of sensors can be calculated at each of the one or more voltages. Further, an acquisition window for the sensor array can be determined. The acquisition window can include a maximum distribution of sensors that provides a maximal overall average gain at a particular reference electrode voltage.Type: ApplicationFiled: March 13, 2018Publication date: November 1, 2018Inventors: Todd REARICK, Melville DAVEY, Mark BEAUCHEMIN
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Patent number: 9970984Abstract: In one implementation, a method for operating an apparatus is described. The method includes applying a bias voltage to place a transistor of a reference sensor in a known state. The reference sensor is in an array of sensors that further includes a chemical sensor coupled to a reaction region for receiving at least one reactant. The method further includes acquiring an output signal from the reference sensor in response to the applied bias voltage. The method further includes determining a defect associated with the array if the output signal does not correspond to the known state.Type: GrantFiled: November 30, 2012Date of Patent: May 15, 2018Assignee: Life Technologies CorporationInventor: Mark Beauchemin
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Patent number: 9927393Abstract: A method, computer program product, and system are provided to calibrate a sensor array with a plurality of sensors. The method can include sweeping a voltage of a reference electrode from a first voltage to a second voltage, where the reference electrode is in fluid communication with the sensor array. The output voltage of each of the plurality of sensors can be monitored at one or more voltages within the first and second voltages. An overall average gain of the plurality of sensors can be calculated at each of the one or more voltages. Further, an acquisition window for the sensor may can be determined. The acquisition window can include a maximum distribution of sensors that provides a maximal overall average gain at a particular reference electrode voltage.Type: GrantFiled: July 14, 2014Date of Patent: March 27, 2018Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: Todd Rearick, Melville Davey, Mark Beauchemin
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Patent number: 9864846Abstract: A compression method includes: measuring a waveform associated with a chemical event occurring on a sensor array, wherein the waveform comprises a plurality of measured values and the chemical event is indicative of a number of nucleotide incorporations in a genetic sequencing reaction; applying a first compression process to the waveform, the first compression process including a truncating of data corresponding to a portion of the waveform that is not related to nucleotide incorporations in the genetic sequencing reaction; and applying a second compression process to the waveform, the second compression process including a data substitution process that replaces at least a portion of the waveform with a plurality of coefficients representative of the portion of the waveform.Type: GrantFiled: September 4, 2013Date of Patent: January 9, 2018Assignee: Life Technologies CorporationInventors: Charles Sugnet, Simon Cawley, Mohit Gupta, Iztok Marjanovic, Mark Beauchemin, Todd Rearick
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Publication number: 20170194985Abstract: A compression method includes measuring a waveform associated with a chemical event occurring on a sensor array, wherein the waveform comprises at least one region associated with expected measured values and at least one region associated with unpredictable measured values; applying a first compression process to the waveform, the first compression process including an averaging of one or more frames in one or more portions of the waveform; applying a keyframe delta compression to the frame-averaged data; forming a compressed data structure including a keyframe and calculated differences subsequent to the keyframe; and storing one or more compressed data structures in memory.Type: ApplicationFiled: December 5, 2016Publication date: July 6, 2017Inventors: Charles Sugnet, Simon CAWLEY, Mohit GUPTA, Iztok MARJANOVIC, Todd REARICK, Mark BEAUCHEMIN, Earl HUBBELL
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Patent number: 9515676Abstract: A compression method includes measuring a waveform associated with a chemical event occurring on a sensor array, wherein the waveform comprises at least one region associated with expected measured values and at least one region associated with unpredictable measured values; applying a first compression process to the waveform, the first compression process including an averaging of one or more frames in one or more portions of the waveform; and applying a second compression process to the waveform, the second compression process including a truncating of data corresponding to a portion of the waveform that is not related to a nucleotide incorporation component of the waveform.Type: GrantFiled: January 30, 2013Date of Patent: December 6, 2016Assignee: Life Technologies CorporationInventors: Charles Sugnet, Simon Cawley, Mohit Gupta, Iztok Marjanovic, Todd Rearick, Mark Beauchemin, Earl Hubbell
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Publication number: 20160187289Abstract: A method is provided to sample a sensor array. The method can include measuring a waveform associated with a chemical event occurring on the sensor array. The waveform can include at least one region associated with expected measured values and at least one region associated with unpredictable measured values. The method can also include applying a first frame averaging to the at least one region associated with the expected measured values. Here, a first number of frames can be included in the first frame averaging. Further, the method can include applying a second frame averaging to the at least one region associated with the unpredictable measured values, where a second number of frames can be included in the second frame averaging. The second number of frames can be less than the first number of frames.Type: ApplicationFiled: October 29, 2015Publication date: June 30, 2016Inventors: Todd REARICK, Mark Beauchemin
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Publication number: 20150355265Abstract: An apparatus including an array of sensors including a plurality of chemical sensors and a plurality of reference sensors, each chemical sensor coupled to a corresponding reaction region for receiving at least one reactant, and each reference sensor comprising a field effect transistor having a gate coupled to a corresponding reference line and an access circuit for accessing the chemical sensors and the reference sensors and a controller to apply bias voltages to the reference lines to select corresponding reference sensors, acquire output signals from the selected reference sensors, and identify one or more defects in the access circuit based on differences between the acquired output signals and expected output signals.Type: ApplicationFiled: August 19, 2015Publication date: December 10, 2015Inventor: Mark BEAUCHEMIN
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Publication number: 20150355269Abstract: In one implementation, a method for operating an apparatus is described. The method includes applying a bias voltage to place a transistor of a reference sensor in a known state, the reference sensor in an array of sensors that further includes a chemical sensor coupled to a reaction region for receiving at least one reactant. The method further includes acquiring an output signal from the reference sensor in response to the applied bias voltage, and determining a defect associated with the array if the output signal does not correspond to the known state.Type: ApplicationFiled: August 19, 2015Publication date: December 10, 2015Inventor: Mark BEAUCHEMIN