Patents by Inventor Stephen R. Quake

Stephen R. Quake 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: 20220403449
    Abstract: Provided herein is a method for analyzing genomic DNA In some embodiments, the method may comprise labeling a genomic sample by adding a capture tag to the ends of the DNA molecules in the sample and labeling molecules that comprise hydroxymethylcytosine with a first fluorophore, immobilizing the labeled DNA molecules on a support, and imaging individual molecules of hydroxymethylated genomic DNA on the support.
    Type: Application
    Filed: November 29, 2021
    Publication date: December 22, 2022
    Applicant: THE BOARD OF TRUSTEES OF THE LELAND STANFORD JUNIOR UNIVERSITY
    Inventors: Chunxiao Song, Stephen R. Quake, Axel Brunger, Jiajie Diao
  • Publication number: 20220372576
    Abstract: The invention provides methods, devices, compositions and kits for diagnosing or predicting transplant status or outcome in a subject who has received a transplant.
    Type: Application
    Filed: June 9, 2022
    Publication date: November 24, 2022
    Inventors: Stephen R. Quake, Thomas M. Snyder, Hannah Valantine
  • Publication number: 20220325319
    Abstract: The invention provides methods, devices, compositions and kits for diagnosing or predicting transplant status or outcome in a subject who has received a transplant.
    Type: Application
    Filed: June 8, 2022
    Publication date: October 13, 2022
    Inventors: Stephen R. Quake, Thomas M. Snyder, Hannah Valantine
  • Publication number: 20220290236
    Abstract: The present disclosure provides methods and systems directed to cell-free identification and/or monitoring of pregnancy-related states. A method for identifying or monitoring a presence or susceptibility of a pregnancy-related state of a subject may comprise assaying a cell-free biological sample derived from said subject to detect a set of biomarkers, and analyzing the set of biomarkers with an algorithm to determine the presence or susceptibility of the pregnancy-related state.
    Type: Application
    Filed: February 3, 2022
    Publication date: September 15, 2022
    Inventors: Lian Chye Winston Koh, Stephen R. Quake, Hei-Mun Christina Fan, Wenying Pan
  • Patent number: 11434282
    Abstract: In one aspect, methods of generating human monoclonal antibodies that specifically binds to an allergen are provided. In some embodiments, the monoclonal antibodies are generated from sequences identified from isolated single B cells from a human subject who is allergic to the allergen.
    Type: Grant
    Filed: June 17, 2021
    Date of Patent: September 6, 2022
    Assignees: Chan Zuckerberg Biohub, Inc., The Board of Trustees of the Leland Stanford Junior University
    Inventors: Derek Croote, Stephen R. Quake, Kari Nadeau, Spyros Darmanis, David N. Cornfield
  • Patent number: 11427876
    Abstract: Methods, devices, compositions and kits are provided for analysis of the microbiome or individual components thereof in an individual. The methods find use in a determination of infection, in analysis of the microbiome structure, in determining the immunocompetence of an individual, and the like. In some embodiments of the invention, the individual is treated with an therapeutic regimen, e.g. drugs, diet, radiation therapy, and the like.
    Type: Grant
    Filed: June 14, 2021
    Date of Patent: August 30, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Iwijn de Vlaminck, Michael Kertesz, Kiran Kaur Khush, Mark Alec Kowarsky, Lance Martin, Stephen R. Quake, Hannah Valantine
  • Patent number: 11401562
    Abstract: Methods, devices, compositions and kits are provided for analysis of the microbiome or individual components thereof in an individual. The methods find use in a determination of infection, in analysis of the microbiome structure, in determining the immunocompetence of an individual, and the like. In some embodiments of the invention, the individual is treated with an therapeutic regimen, e.g. drugs, diet, radiation therapy, and the like.
    Type: Grant
    Filed: June 14, 2021
    Date of Patent: August 2, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Iwijn de Vlaminck, Michael Kertesz, Kiran Kaur Khush, Mark Alec Kowarsky, Lance Martin, Stephen R. Quake, Hannah Valantine
  • Patent number: 11390918
    Abstract: The invention provides methods, devices, compositions and kits for diagnosing or predicting transplant status or outcome in a subject who has received a transplant.
    Type: Grant
    Filed: May 18, 2021
    Date of Patent: July 19, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Thomas M. Snyder, Hannah Valantine
  • Patent number: 11384389
    Abstract: The invention provides methods, devices, compositions and kits for diagnosing or predicting transplant status or outcome in a subject who has received a transplant.
    Type: Grant
    Filed: April 20, 2021
    Date of Patent: July 12, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Thomas M. Snyder, Hannah Valantine
  • Publication number: 20220213549
    Abstract: The invention generally relates to methods for assessing the health of a tissue by characterizing circulating nucleic acids in a biological sample. According to certain embodiments, methods for assessing the health of a tissue include the steps of detecting a sample level of RNA in a biological sample, comparing the sample level of RNA to a reference level of RNA specific to the tissue, determining whether a difference exists between the sample level and the reference level, and characterizing the tissue as abnormal if a difference is detected.
    Type: Application
    Filed: February 10, 2022
    Publication date: July 7, 2022
    Inventors: Lian Chye Winston Koh, Stephen R. Quake, Hei-Mun Christina Fan, Wenying Pan
  • Patent number: 11365453
    Abstract: Methods, devices, compositions and kits are provided for analysis of the microbiome or individual components thereof in an individual. The methods find use in a determination of infection, in analysis of the microbiome structure, in determining the immunocompetence of an individual, and the like. In some embodiments of the invention, the individual is treated with an therapeutic regimen, e.g. drugs, diet, radiation therapy, and the like.
    Type: Grant
    Filed: June 14, 2021
    Date of Patent: June 21, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Iwijn de Vlaminck, Michael Kertesz, Kiran Kaur Khush, Mark Alec Kowarsky, Lance Martin, Stephen R. Quake, Hannah Valantine
  • Publication number: 20220125310
    Abstract: Glaucoma is the second most common cause of blindness in the global world. It is a multifactorial disease with several risk factors, of which intraocular pressure (IOP) is the most important. IOP measurements are used for glaucoma diagnosis and patient monitoring. IOP has wide diurnal fluctuation, and is dependent on body posture, so the occasional measurements done by the eye care expert in clinic can be misleading. We provide an implantable sensor, based on microfluidic principles, which in one example has 1 mmHg limit of detection, high sensitivity and excellent reproducibility. This sensor has an optical interface, which enables IOP to be read with, for example, a cell phone camera. The design, fabrication, along with the option of self-monitoring are promising steps toward better patient care and treatment for this devastating disease.
    Type: Application
    Filed: January 4, 2022
    Publication date: April 28, 2022
    Inventors: Yosef Mandel, Ismail Emre Araci, Stephen R. Quake
  • Publication number: 20220042098
    Abstract: The invention generally relates to methods for assessing the health of a tissue by characterizing circulating nucleic acids in a biological sample. According to certain embodiments, methods for assessing the health of a tissue include the steps of detecting a sample level of RNA in a biological sample, comparing the sample level of RNA to a reference level of RNA specific to the tissue, determining whether a difference exists between the sample level and the reference level, and characterizing the tissue as abnormal if a difference is detected.
    Type: Application
    Filed: February 26, 2021
    Publication date: February 10, 2022
    Inventors: Lian Chye Winston Koh, Stephen R. Quake, Hei-Mun Christina Fan, Wenying Pan
  • Publication number: 20220010381
    Abstract: The invention generally relates to methods for assessing the health of a tissue by characterizing circulating nucleic acids in a biological sample. According to certain embodiments, methods for assessing the health of a tissue include the steps of detecting a sample level of RNA in a biological sample, comparing the sample level of RNA to a reference level of RNA specific to the tissue, determining whether a difference exists between the sample level and the reference level, and characterizing the tissue as abnormal if a difference is detected.
    Type: Application
    Filed: August 6, 2021
    Publication date: January 13, 2022
    Inventors: Lian Chye Winston Koh, Stephen R. Quake, Hei-Mun Christina Fan, Wenying Pan
  • Patent number: 11213203
    Abstract: Glaucoma is the second most common cause of blindness in the global world. It is a multifactorial disease with several risk factors, of which intraocular pressure (IOP) is the most important. IOP measurements are used for glaucoma diagnosis and patient monitoring. IOP has wide diurnal fluctuation, and is dependent on body posture, so the occasional measurements done by the eye care expert in clinic can be misleading. We provide an implantable sensor, based on microfluidic principles, which in one example has 1 mmHg limit of detection, high sensitivity and excellent reproducibility. This sensor has an optical interface, which enables IOP to be read with, for example, a cell phone camera. The design, fabrication, along with the option of self-monitoring are promising steps toward better patient care and treatment for this devastating disease.
    Type: Grant
    Filed: July 10, 2018
    Date of Patent: January 4, 2022
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Yosef Mandel, Ismail Emre Araci, Stephen R. Quake
  • Publication number: 20210395709
    Abstract: The disclosure provides Cas9 protein variants that are thermostable at elevated temperatures (e.g., at least 70° C. or above). A Cas9 protein may have at least 75% sequence identity to a wild-type Cas9 protein (e.g., a wild-type Cas9 protein having the sequence of SEQ ID NO:1) and/or one or more amino acid substitutions relative to the wild-type Cas9 protein.
    Type: Application
    Filed: October 17, 2019
    Publication date: December 23, 2021
    Inventors: Stephen R. Quake, Stephanie Tzouanas Schmidt, Feiqiao Brian Yu, Paul Blainey, Andrew Paul May
  • Publication number: 20210363584
    Abstract: The invention generally relates to methods for assessing the health of a tissue by characterizing circulating nucleic acids in a biological sample. According to certain embodiments, methods for assessing the health of a tissue include the steps of detecting a sample level of RNA in a biological sample, comparing the sample level of RNA to a reference level of RNA specific to the tissue, determining whether a difference exists between the sample level and the reference level, and characterizing the tissue as abnormal if a difference is detected.
    Type: Application
    Filed: August 6, 2021
    Publication date: November 25, 2021
    Inventors: Lian Chye Winston Koh, Stephen R. Quake, Hei-Mun Christina Fan, Wenying Pan
  • Publication number: 20210317198
    Abstract: In one aspect, methods of generating human monoclonal antibodies that specifically binds to an allergen are provided. In some embodiments, the monoclonal antibodies are generated from sequences identified from isolated single B cells from a human subject who is allergic to the allergen.
    Type: Application
    Filed: June 17, 2021
    Publication date: October 14, 2021
    Inventors: Derek Croote, Stephen R. Quake, Kari Nadeau, Spyros Darmanis, David N. Cornfield
  • Publication number: 20210317199
    Abstract: In one aspect, methods of generating human monoclonal antibodies that specifically binds to an allergen are provided. In some embodiments, the monoclonal antibodies are generated from sequences identified from isolated single B cells from a human subject who is allergic to the allergen.
    Type: Application
    Filed: June 17, 2021
    Publication date: October 14, 2021
    Inventors: Derek Croote, Stephen R. Quake, Kari Nadeau, Spyros Darmanis, David N. Cornfield
  • Publication number: 20210310085
    Abstract: Methods, devices, compositions and kits are provided for analysis of the microbiome or individual components thereof in an individual. The methods find use in a determination of infection, in analysis of the microbiome structure, in determining the immunocompetence of an individual, and the like. In some embodiments of the invention, the individual is treated with an therapeutic regimen, e.g. drugs, diet, radiation therapy, and the like.
    Type: Application
    Filed: June 14, 2021
    Publication date: October 7, 2021
    Inventors: Iwijn de Vlaminck, Michael Kertesz, Kiran Kaur Khush, Mark Alec Kowarsky, Lance Martin, Stephen R. Quake, Hannah Valantine