Patents by Inventor Eugene Tu
Eugene Tu 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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Publication number: 20240035082Abstract: The present disclosure provides compositions, methods and systems for sequencing a template nucleic acid using a polymerase based, nucleic acid binding reaction involving examination of the interaction between a polymerase and template nucleic acid in the presence of one or more unlabeled nucleotides. The methods rely, in part, on identifying a base of a template nucleic acid during nucleic acid synthesis by controlling the sequencing reaction conditions. Template nucleic acid bases may be identified during an examination step followed by an optional incorporation step.Type: ApplicationFiled: October 11, 2022Publication date: February 1, 2024Applicant: Pacific Biosciences of California, Inc.Inventors: Kandaswamy VIJAYAN, Eugene TU, Mark A. BERNARD
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Patent number: 11826130Abstract: A method and a device for diagnostic of skin cancer and other mammalian skin tissue pathologies are described. The method relies on determination of pathological changes in tissue vascularization and capillary blood flow. The device uses photonic emitters and detectors to characterize temporal and spatial changes in blood flow in response to external perturbation such as external mechanical force or temperature change.Type: GrantFiled: July 19, 2021Date of Patent: November 28, 2023Assignee: VERISKIN, INC.Inventors: Mirianas Chachisvilis, Carl Frederick Edman, Eugene Tu
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Patent number: 11499185Abstract: The present disclosure provides compositions, methods and systems for sequencing a template nucleic acid using a polymerase based, nucleic acid binding reaction involving examination of the interaction between a polymerase and template nucleic acid in the presence of one or more unlabeled nucleotides. The methods rely, in part, on identifying a base of a template nucleic acid during nucleic acid synthesis by controlling the sequencing reaction conditions. Template nucleic acid bases may be identified during an examination step followed by an optional incorporation step.Type: GrantFiled: July 26, 2018Date of Patent: November 15, 2022Assignee: PACIFIC BIOSCIENCES OF CALIFORNIA, INC.Inventors: Kandaswamy Vijayan, Eugene Tu, Mark A. Bernard
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Publication number: 20220297123Abstract: A fluid processing device comprises multiple separate fluid channels and multiple processing stations configured to perform identical and simultaneous process steps on multiple fluid samples in the fluid channels. An embodiment of the fluid processing device is contained in a compact, low-cost, sealed consumable in which each processing station includes at least a reagent input well and a process chamber associated with each fluid channel. A reagent pack is associated with at least one processing station and includes at least one reagent chamber associated with each reagent input well. A barb actuator rod is associated with the processing station and includes a barb associated with each reagent chamber. Each barb actuator rod is movable between a first position in which each barb punctures the reagent chamber(s) associated with the barb and a second position in which each barb of the barb actuator rod does not contact the associated reagent chamber(s).Type: ApplicationFiled: March 18, 2022Publication date: September 22, 2022Applicant: Lost Arrow BioInventors: Christopher KILCOIN, Eugene TU
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Publication number: 20220298553Abstract: Method of identifying a cognate nucleotide (i.e., the “next correct nucleotide”) for a primed template nucleic acid molecule. In some embodiments, an ordered or random array of primed target nucleic acids characterized by different cognate nucleotides can be evaluated using a single imaging step to identify different cognate nucleotides for a collection of different primed template nucleic acid molecules. An optional incorporation step can follow the identifying step. A polymerase different from the ones used in the binding and examination steps can be used to incorporate a nucleotide, such as a reversible terminator nucleotide, preliminary to identification of the next cognate nucleotide.Type: ApplicationFiled: December 29, 2021Publication date: September 22, 2022Applicant: Omniome, Inc.Inventors: Corey M. DAMBACHER, Devon CAYER, Richard LECOULTRE, Joseph ROKICKI, Kerry WILSON, Eugene TU, Kandaswamy VIJAYAN
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Publication number: 20220162690Abstract: Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.Type: ApplicationFiled: October 6, 2021Publication date: May 26, 2022Inventors: Kandaswamy VIJAYAN, Corey M. DAMBACHER, Eugene TU, Mark A. BERNARD, Joseph ROKICKI, Kerry WILSON
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Patent number: 11326206Abstract: The present disclosure provides compositions, methods and systems for quantifying target sequences and identifying target sequence variants.Type: GrantFiled: April 6, 2017Date of Patent: May 10, 2022Assignee: PACIFIC BIOSCIENCES OF CALIFORNIA, INC.Inventors: Yi Zhang, Steven Brentano, Eugene Tu, Kandaswamy Vijayan
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Patent number: 11248254Abstract: Method of identifying a cognate nucleotide (i.e., the “next correct nucleotide”) for a primed template nucleic acid molecule. In some embodiments, an ordered or random array of primed target nucleic acids characterized by different cognate nucleotides can be evaluated using a single imaging step to identify different cognate nucleotides for a collection of different primed template nucleic acid molecules. An optional incorporation step can follow the identifying step. A polymerase different from the ones used in the binding and examination steps can be used to incorporate a nucleotide, such as a reversible terminator nucleotide, preliminary to identification of the next cognate nucleotide.Type: GrantFiled: December 21, 2017Date of Patent: February 15, 2022Assignee: OMNIOME, INC.Inventors: Corey M. Dambacher, Devon Cayer, Richard LeCoultre, Joseph Rokicki, Kerry Wilson, Eugene Tu, Kandaswamy Vijayan
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Publication number: 20220039674Abstract: A method and a device for diagnostic of skin cancer and other mammalian skin tissue pathologies are described. The method relies on determination of pathological changes in tissue vascularization and capillary blood flow. The device uses photonic emitters and detectors to characterize temporal and spatial changes in blood flow in response to external perturbation such as external mechanical force or temperature change.Type: ApplicationFiled: July 19, 2021Publication date: February 10, 2022Inventors: Mirianas CHACHISVILIS, Carl Frederick EDMAN, Eugene TU
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Patent number: 11180749Abstract: A method for separating a target allele from a mixture of nucleic acids by (a) providing a mixture of nucleic acids in fluidic contact with a stabilized ternary complex that is attached to a solid support, wherein the stabilized ternary complex includes a polymerase, primed nucleic acid template, and next correct nucleotide, wherein the template has a target allele, wherein the next correct nucleotide is a cognate nucleotide for the target allele, and wherein the stabilized ternary complex is attached to the solid support via a linkage between the polymerase and the solid support or via a linkage between the next correct nucleotide and the solid support; and (b) separating the solid support from the mixture of nucleic acids, thereby separating the target allele from the mixture of nucleic acids.Type: GrantFiled: August 7, 2019Date of Patent: November 23, 2021Assignee: OMNIOME, INC.Inventors: Corey M. Dambacher, Eugene Tu
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Patent number: 11168364Abstract: Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.Type: GrantFiled: September 13, 2019Date of Patent: November 9, 2021Assignee: OMNIOME, INC.Inventors: Kandaswamy Vijayan, Corey M. Dambacher, Eugene Tu, Mark A. Bernard, Joseph Rokicki, Kerry Wilson
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Patent number: 11089969Abstract: A method and a device for diagnostic of skin cancer and other mammalian skin tissue pathologies are described. The method relies on determination of pathological changes in tissue vascularization and capillary blood flow. The device uses photonic emitters and detectors to characterize temporal and spatial changes in blood flow in response to external perturbation such as external mechanical force or temperature change.Type: GrantFiled: December 5, 2014Date of Patent: August 17, 2021Assignee: VERISKIN, INC.Inventors: Mirianas Chachisvilis, Carl Frederick Edman, Eugene Tu
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Publication number: 20200002762Abstract: Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.Type: ApplicationFiled: September 13, 2019Publication date: January 2, 2020Inventors: Kandaswamy VIJAYAN, Corey M. DAMBACHER, Eugene TU, Mark A. BERNARD, Joseph ROKICKI, Kerry WILSON
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Publication number: 20190359975Abstract: A method for separating a target allele from a mixture of nucleic acids by (a) providing a mixture of nucleic acids in fluidic contact with a stabilized ternary complex that is attached to a solid support, wherein the stabilized ternary complex includes a polymerase, primed nucleic acid template, and next correct nucleotide, wherein the template has a target allele, wherein the next correct nucleotide is a cognate nucleotide for the target allele, and wherein the stabilized ternary complex is attached to the solid support via a linkage between the polymerase and the solid support or via a linkage between the next correct nucleotide and the solid support; and (b) separating the solid support from the mixture of nucleic acids, thereby separating the target allele from the mixture of nucleic acids.Type: ApplicationFiled: August 7, 2019Publication date: November 28, 2019Applicant: Omniome, Inc.Inventors: Corey M. Dambacher, Eugene Tu
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Patent number: 10443098Abstract: Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.Type: GrantFiled: August 15, 2017Date of Patent: October 15, 2019Assignee: OMNIOME, INC.Inventors: Kandaswamy Vijayan, Corey M. Dambacher, Eugene Tu, Mark A. Bernard, Joseph Rokicki, Kerry Wilson
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Patent number: 10415029Abstract: A method for separating a target allele from a mixture of nucleic acids by (a) providing a mixture of nucleic acids in fluidic contact with a stabilized ternary complex that is attached to a solid support, wherein the stabilized ternary complex includes a polymerase, primed nucleic acid template, and next correct nucleotide, wherein the template has a target allele, wherein the next correct nucleotide is a cognate nucleotide for the target allele, and wherein the stabilized ternary complex is attached to the solid support via a linkage between the polymerase and the solid support or via a linkage between the next correct nucleotide and the solid support; and (b) separating the solid support from the mixture of nucleic acids, thereby separating the target allele from the mixture of nucleic acids.Type: GrantFiled: September 11, 2017Date of Patent: September 17, 2019Assignee: OMNIOME, INC.Inventors: Corey M. Dambacher, Eugene Tu
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Publication number: 20190119742Abstract: The present disclosure provides compositions, methods and systems for quantifying target sequences and identifying target sequence variants.Type: ApplicationFiled: April 6, 2017Publication date: April 25, 2019Applicant: OMNIOME, INC.Inventors: Yi ZHANG, Steven BRENTANO, Eugene TU, Kandaswamy VIJAYAN
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Patent number: 10253352Abstract: Provided herein are methods for analyzing a signature sequence in a nucleic acid sample by rapid sequencing of a target nucleic acid region. The method examines the target nucleic acid directly and minimizes the number of examination steps needed to determine a signature that is characteristic of a genetic feature of the nucleic acid sample.Type: GrantFiled: November 17, 2016Date of Patent: April 9, 2019Assignee: OMNIOME, INC.Inventors: Michael Nguyen, Eugene Tu
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Patent number: 10246744Abstract: Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.Type: GrantFiled: October 4, 2017Date of Patent: April 2, 2019Assignee: OMNIOME, INC.Inventors: Kandaswamy Vijayan, Corey M. Dambacher, Eugene Tu, Mark A. Bernard, Joseph Rokicki, Kerry Wilson
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Publication number: 20190032124Abstract: The present disclosure provides compositions, methods and systems for sequencing a template nucleic acid using a polymerase based, nucleic acid binding reaction involving examination of the interaction between a polymerase and template nucleic acid in the presence of one or more unlabeled nucleotides. The methods rely, in part, on identifying a base of a template nucleic acid during nucleic acid synthesis by controlling the sequencing reaction conditions. Template nucleic acid bases may be identified during an examination step followed by an optional incorporation step.Type: ApplicationFiled: July 26, 2018Publication date: January 31, 2019Applicant: OMNIOME, INC.Inventors: Kandaswamy VIJAYAN, Eugene TU, Mark A. BERNARD