Patents by Inventor Athurva Gore

Athurva Gore 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).

  • Publication number: 20240417795
    Abstract: The invention relates to carrier screening and methods for describing a structural variant, such as a large rearrangement or chromosomal abnormality, in a person's genome using probes that are designed to determine the person's genetic sequence and reveal substitution mutations and small structural variants. Identifying a structural variant may include exposing a nucleic acid to a plurality of probes. Each probe has a linked pair of targeting arms designed to hybridize upstream and downstream of a target in a genome. The method includes hybridizing two of the probes to the nucleic acid and attaching the two probes together to create an inter-probe product as well as detecting the inter-probe product and reporting a structural variant of the genome in the nucleic acid.
    Type: Application
    Filed: June 16, 2023
    Publication date: December 19, 2024
    Inventors: Athurva Gore, Mark Umbarger
  • Patent number: 11965157
    Abstract: The present disclosure relates to methods for constructing polynucleotide libraries and/or polynucleotide sequencing. Related kits and devices are also disclosed. The present disclosure also relates to compositions, kits, devices, and methods for conducting genetic and genomic analysis, for example, by polynucleotide sequencing. In particular aspects, provided herein are compositions, kits, and methods for constructing libraries with improved ligation efficiency and conversion rate during sequencing. In certain embodiments, the compositions, kits, and methods herein are useful for analyzing polynucleotide fragments, such as circulating polynucleotide fragments in the body of a subject, including circulating tumor DNA.
    Type: Grant
    Filed: April 18, 2018
    Date of Patent: April 23, 2024
    Assignee: Singlera Genomics, Inc.
    Inventors: Jeffrey A Gole, Athurva Gore, Rui Liu
  • Patent number: 11680284
    Abstract: The invention relates to carrier screening and methods for describing a structural variant, such as a large rearrangement or chromosomal abnormality, in a person's genome using probes that are designed to determine the person's genetic sequence and reveal substitution mutations and small structural variants. Identifying a structural variant may include exposing a nucleic acid to a plurality of probes. Each probe has a linked pair of targeting arms designed to hybridize upstream and downstream of a target in a genome. The method includes hybridizing two of the probes to the nucleic acid and attaching the two probes together to create an inter-probe product as well as detecting the inter-probe product and reporting a structural variant of the genome in the nucleic acid.
    Type: Grant
    Filed: August 30, 2018
    Date of Patent: June 20, 2023
    Assignee: Moledular Loop Biosciences, Inc.
    Inventors: Athurva Gore, Mark Umbarger
  • Publication number: 20220333160
    Abstract: The invention generally relates to negative selection of nucleic acids. The invention provides methods and systems that remove unwanted segments of nucleic acid in a sample so that a target gene or region of interest may be analyzed without interference from the unwanted segments. A sample is obtained that includes single-stranded nucleic acid with one or more unwanted segments. Complementary nucleic acid is added to the single-stranded nucleic acid to create a double-stranded region that includes the unwanted segment. The double-stranded region is then digested, leaving single-stranded nucleic acid that includes the target gene or region of interest. This allows paralogs, pseudogenes, repetitive elements, and other segments of the genome that may be similar to the target gene or region of interest to be removed from the sample.
    Type: Application
    Filed: July 1, 2022
    Publication date: October 20, 2022
    Inventors: Jeff Gole, Athurva Gore, Mark Umbarger
  • Patent number: 11408024
    Abstract: The invention generally relates to negative selection of nucleic acids. The invention provides methods and systems that remove unwanted segments of nucleic acid in a sample so that a target gene or region of interest may be analyzed without interference from the unwanted segments. A sample is obtained that includes single-stranded nucleic acid with one or more unwanted segments. Complementary nucleic acid is added to the single-stranded nucleic acid to create a double-stranded region that includes the unwanted segment. The double-stranded region is then digested, leaving single-stranded nucleic acid that includes the target gene or region of interest. This allows paralogs, pseudogenes, repetitive elements, and other segments of the genome that may be similar to the target gene or region of interest to be removed from the sample.
    Type: Grant
    Filed: September 9, 2015
    Date of Patent: August 9, 2022
    Assignee: Molecular Loop Biosciences, Inc.
    Inventors: Jeff Gole, Athurva Gore, Mark Umbarger
  • Publication number: 20210292821
    Abstract: The invention generally relates to methods for determining aneuploidy of cells with respect to a control sample. In certain embodiments, the method involves exposing a sample to a plurality of probes capable of capturing DNA from at least one chromosome suspected of having an altered copy number, and at least one control DNA sample known or suspected to have a stable copy number, capturing and sequencing DNA that binds to the probes, calculating a chromosomal read fraction; determining a sample specific scaling factor; scaling the chromosomal read fractions, normalizing the scaled read fractions, and determining a copy number state of at least one chromosome.
    Type: Application
    Filed: June 4, 2021
    Publication date: September 23, 2021
    Applicant: Good Start Genetics, Inc.
    Inventor: Athurva GORE
  • Patent number: 11053548
    Abstract: The invention generally relates to methods for determining aneuploidy of cells with respect to a control sample. In certain embodiments, the method involves exposing a sample to a plurality of probes capable of capturing DNA from at least one chromosome suspected of having an altered copy number, and at least one control DNA sample known or suspected to have a stable copy number, capturing and sequencing DNA that binds to the probes, calculating a chromosomal read fraction; determining a sample specific scaling factor; scaling the chromosomal read fractions, normalizing the scaled read fractions, and determining a copy number state of at least one chromosome.
    Type: Grant
    Filed: May 12, 2015
    Date of Patent: July 6, 2021
    Assignee: Good Start Genetics, Inc.
    Inventor: Athurva Gore
  • Publication number: 20210090687
    Abstract: The present invention provides methods for validating results of a pre-implantation genetic screen. Methods of the invention increase the efficacy of the common PGS assay FAST-SeqS by taking advantage of single-nucleotide polymorphisms (SNPs) generated from the assay to confirm copy number calls, detect errors, identify samples, and recognize and identify sources of contamination. Methods of the invention increase the reliability of a PGS result, thereby making embryo selection more precise and improving outcomes of in vitro fertilization.
    Type: Application
    Filed: August 5, 2020
    Publication date: March 25, 2021
    Inventors: Mark UMBARGER, Athurva GORE, Gregory PORRECA
  • Publication number: 20200123538
    Abstract: The present disclosure relates to methods for constructing polynucleotide libraries and/or polynucleotide sequencing. Related kits and devices are also disclosed. The present disclosure also relates to compositions, kits, devices, and methods for conducting genetic and genomic analysis, for example, by polynucleotide sequencing. In particular aspects, provided herein are compositions, kits, and methods for constructing libraries with improved ligation efficiency and conversion rate during sequencing.
    Type: Application
    Filed: April 18, 2018
    Publication date: April 23, 2020
    Applicant: Singlera Genomics, Inc.
    Inventors: Jeffrey A GOLE, Athurva GORE, Rui LIU
  • Patent number: 10445543
    Abstract: The invention generally relates to devices and systems for individually barcoding sample vessels. In certain embodiments, the devices comprise an attachment member and an extension member, where the extension member can accommodate an identifier, such as a barcode. When loaded into a substrate, the barcoded vials are scanned by a barcode reader.
    Type: Grant
    Filed: August 24, 2018
    Date of Patent: October 15, 2019
    Assignee: Good Start Genetics, Inc.
    Inventors: Gregory Porreca, Mark Umbarger, Athurva Gore
  • Publication number: 20190295690
    Abstract: Methods for improving variant protection are provided. The methods include the steps of generating an in silico genome map that includes a primary path, and a secondary path comprising variants that were missed or incorrectly called in a sequence assembly simulation, aligning the secondary path to the primary path, convoluting the second path to the primary path, and identifying the variants based upon reads that align with the secondary path but not the primary path. All of method steps can be carried out using a computer. Systems incorporated these methods are also included.
    Type: Application
    Filed: February 3, 2017
    Publication date: September 26, 2019
    Inventors: Athurva Gore, Eric Tsung, Gregory Porreca
  • Publication number: 20180371533
    Abstract: The invention relates to carrier screening and methods for describing a structural variant, such as a large rearrangement or chromosomal abnormality, in a person's genome using probes that are designed to determine the person's genetic sequence and reveal substitution mutations and small structural variants. Identifying a structural variant may include exposing a nucleic acid to a plurality of probes. Each probe has a linked pair of targeting arms designed to hybridize upstream and downstream of a target in a genome. The method includes hybridizing two of the probes to the nucleic acid and attaching the two probes together to create an inter-probe product as well as detecting the inter-probe product and reporting a structural variant of the genome in the nucleic acid.
    Type: Application
    Filed: August 30, 2018
    Publication date: December 27, 2018
    Inventors: Athurva Gore, Mark Umbarger
  • Publication number: 20180365458
    Abstract: The invention generally relates to devices and systems for individually barcoding sample vessels. In certain embodiments, the devices comprise an attachment member and an extension member, where the extension member can accommodate an identifier, such as a barcode. When loaded into a substrate, the barcoded vials are scanned by a barcode reader.
    Type: Application
    Filed: August 24, 2018
    Publication date: December 20, 2018
    Inventors: Gregory Porreca, Mark Umbarger, Athurva Gore
  • Patent number: 10066259
    Abstract: The invention relates to carrier screening and methods for describing a structural variant, such as a large rearrangement or chromosomal abnormality, in a person's genome using probes that are designed to determine the person's genetic sequence and reveal substitution mutations and small structural variants. Identifying a structural variant may include exposing a nucleic acid to a plurality of probes. Each probe has a linked pair of targeting arms designed to hybridize upstream and downstream of a target in a genome. The method includes hybridizing two of the probes to the nucleic acid and attaching the two probes together to create an inter-probe product as well as detecting the inter-probe product and reporting a structural variant of the genome in the nucleic acid.
    Type: Grant
    Filed: January 6, 2016
    Date of Patent: September 4, 2018
    Assignee: Good Start Genetics, Inc.
    Inventors: Athurva Gore, Mark Umbarger
  • Patent number: 10061953
    Abstract: The invention generally relates to devices and systems for individually barcoding sample vessels. In certain embodiments, the devices comprise an attachment member and an extension member, where the extension member can accommodate an identifier, such as a barcode. When loaded into a substrate, the barcoded vials are scanned by a barcode reader.
    Type: Grant
    Filed: January 13, 2016
    Date of Patent: August 28, 2018
    Assignee: Good Start Genetics, Inc.
    Inventors: Gregory Porreca, Mark Umbarger, Athurva Gore
  • Publication number: 20160210486
    Abstract: The invention generally relates to devices and systems for individually barcoding sample vessels. In certain embodiments, the devices comprise an attachment member and an extension member, where the extension member can accommodate an identifier, such as a barcode. When loaded into a substrate, the barcoded vials are scanned by a barcode reader.
    Type: Application
    Filed: January 13, 2016
    Publication date: July 21, 2016
    Inventors: Gregory Porreca, Mark Umbarger, Athurva Gore
  • Publication number: 20160210404
    Abstract: The present invention provides methods for validating results of a pre-implantation genetic screen. Methods of the invention increase the efficacy of the common PGS assay FAST-SeqS by taking advantage of single-nucleotide polymorphisms (SNPs) generated from the assay to confirm copy number calls, detect errors, identify samples, and recognize and identify sources of contamination. Methods of the invention increase the reliability of a PGS result, thereby making embryo selection more precise and improving outcomes of in vitro fertilization.
    Type: Application
    Filed: January 14, 2016
    Publication date: July 21, 2016
    Inventors: Mark Umbarger, Athurva Gore, Gregory Porreca
  • Publication number: 20160194692
    Abstract: The invention relates to carrier screening and methods for describing a structural variant, such as a large rearrangement or chromosomal abnormality, in a person's genome using probes that are designed to determine the person's genetic sequence and reveal substitution mutations and small structural variants. Identifying a structural variant may include exposing a nucleic acid to a plurality of probes. Each probe has a linked pair of targeting arms designed to hybridize upstream and downstream of a target in a genome. The method includes hybridizing two of the probes to the nucleic acid and attaching the two probes together to create an inter-probe product as well as detecting the inter-probe product and reporting a structural variant of the genome in the nucleic acid.
    Type: Application
    Filed: January 6, 2016
    Publication date: July 7, 2016
    Inventors: Athurva Gore, Mark Umbarger
  • Publication number: 20160068889
    Abstract: The invention generally relates to negative selection of nucleic acids. The invention provides methods and systems that remove unwanted segments of nucleic acid in a sample so that a target gene or region of interest may be analyzed without interference from the unwanted segments. A sample is obtained that includes single-stranded nucleic acid with one or more unwanted segments. Complementary nucleic acid is added to the single-stranded nucleic acid to create a double-stranded region that includes the unwanted segment. The double-stranded region is then digested, leaving single-stranded nucleic acid that includes the target gene or region of interest. This allows paralogs, pseudogenes, repetitive elements, and other segments of the genome that may be similar to the target gene or region of interest to be removed from the sample.
    Type: Application
    Filed: September 9, 2015
    Publication date: March 10, 2016
    Inventors: Jeff Gole, Athurva Gore, Mark Umbarger
  • Patent number: D773070
    Type: Grant
    Filed: February 24, 2015
    Date of Patent: November 29, 2016
    Assignee: Good Start Genetics, Inc.
    Inventors: Gregory Porreca, Mark Umbarger, Athurva Gore