Patents by Inventor Timothy A. Blauwkamp

Timothy A. Blauwkamp 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).

  • SYNTHETIC NUCLEIC ACID SPIKE-INS
    Publication number: 20240043923
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Application
    Filed: May 8, 2023
    Publication date: February 8, 2024
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • Sample preparation methods, systems and compositions
    Patent number: 11834711
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Grant
    Filed: September 24, 2021
    Date of Patent: December 5, 2023
    Assignee: Karius, Inc.
    Inventors: Timothy A Blauwkamp, Rene Sit, Igor D. Vilfan
  • Synthetic nucleic acid spike-ins
    Patent number: 11692224
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Grant
    Filed: June 23, 2021
    Date of Patent: July 4, 2023
    Assignee: Karius, Inc.
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • Sample series to differentiate target nucleic acids from contaminant nucleic acids
    Patent number: 11674167
    Abstract: This disclosure provides methods, compositions and kits for determining if nucleic acids detected in a sample such as a clinical sample are derived from contaminant pathogens or clinically-relevant pathogens.
    Type: Grant
    Filed: May 27, 2020
    Date of Patent: June 13, 2023
    Assignee: Karius, Inc.
    Inventors: Timothy A. Blauwkamp, Liza Huijse, Michael Rosen, Igor D. Vilfan
  • SAMPLE PREPARATION METHODS, SYSTEMS AND COMPOSITIONS
    Publication number: 20220186304
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Application
    Filed: September 24, 2021
    Publication date: June 16, 2022
    Inventors: Timothy A. BLAUWKAMP, Rene SIT, Igor D. VILFAN
  • COMPOSITIONS AND METHODS FOR ENRICHING POPULATIONS OF NUCLEIC ACIDS
    Publication number: 20220154246
    Abstract: This disclosure provides methods and compositions that are useful for enriching a particular population of nucleic acids (a “population of interest”) within a complex mixture of nucleic acids. The population of interest may make up a minor portion of a complex mixture of nucleic acids. The methods and compositions provided herein are useful for detecting, predicting, diagnosing, or monitoring a disease or disorder, particularly a disease or disorder caused by a foreign microbe or pathogen.
    Type: Application
    Filed: July 30, 2021
    Publication date: May 19, 2022
    Inventors: Timothy A. Blauwkamp, Fred Christians, Igor D. Vilfan, Scott Smith, Michael Kertesz
  • DIRECT-TO-LIBRARY METHODS, SYSTEMS, AND COMPOSITIONS
    Publication number: 20220010303
    Abstract: Provided herein are direct-to-library methods, systems, and compositions.
    Type: Application
    Filed: May 18, 2021
    Publication date: January 13, 2022
    Applicant: KARIUS, INC.
    Inventors: Sivan BERCOVICI, Lily BLAIR, Timothy A. BLAUWKAMP, Peter J. EUGSTER, David K. HONG, Trupti KAWLI, Michael J. ROSEN, Damek SPACEK, Igor D. VILFAN
  • DETECTION AND PREDICTION OF INFECTIOUS DISEASE
    Publication number: 20210403986
    Abstract: Provided herein are fragment length profiles of nucleic acid libraries, methods of generating fragment length profiles of nucleic acid libraries and methods of using fragment length profiles for diagnostics and/or prognostics. The application further provides methods, compositions and kits for determining the infection stage or the site of localization in a subject.
    Type: Application
    Filed: May 18, 2021
    Publication date: December 30, 2021
    Applicant: KARIUS, INC.
    Inventors: Sivan BERCOVICI, Lily BLAIR, Timothy A. BLAUWKAMP, Peter J. EUGSTER, Desiree HOLLEMON, David K. HONG, Trupti KAWLI, Mark Alec KOWARSKY, Martin M.S. LINDNER, Michael J. ROSEN, Damek SPACEK, Igor D. VILFAN
  • Sample preparation methods, systems and compositions
    Patent number: 11180800
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Grant
    Filed: May 13, 2020
    Date of Patent: November 23, 2021
    Assignee: Karius, Inc.
    Inventors: Timothy A. Blauwkamp, Rene Sit, Igor D. Vilfan
  • SYNTHETIC NUCLEIC ACID SPIKE-INS
    Publication number: 20210324467
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Application
    Filed: June 23, 2021
    Publication date: October 21, 2021
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • Compositions and methods for enriching populations of nucleic acids
    Patent number: 11111520
    Abstract: This disclosure provides methods and compositions that are useful for enriching a particular population of nucleic acids (a “population of interest”) within a complex mixture of nucleic acids. The population of interest may make up a minor portion of a complex mixture of nucleic acids. The methods and compositions provided herein are useful for detecting, predicting, diagnosing, or monitoring a disease or disorder, particularly a disease or disorder caused by a foreign microbe or pathogen.
    Type: Grant
    Filed: May 17, 2016
    Date of Patent: September 7, 2021
    Assignee: Karius, Inc.
    Inventors: Timothy A. Blauwkamp, Fred Christians, Igor D. Vilfan, Scott Smith, Michael Kertesz
  • Synthetic nucleic acid spike-ins
    Patent number: 11078532
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Grant
    Filed: April 16, 2018
    Date of Patent: August 3, 2021
    Assignee: Karius, Inc.
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • SAMPLE PREPARATION METHODS, SYSTEMS AND COMPOSITIONS
    Publication number: 20200399691
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Application
    Filed: May 13, 2020
    Publication date: December 24, 2020
    Inventors: Timothy A. BLAUWKAMP, Rene SIT, Igor D. VILFAN
  • SAMPLE SERIES TO DIFFERENTIATE TARGET NUCLEIC ACIDS FROM CONTAMINANT NUCLEIC ACIDS
    Publication number: 20200291457
    Abstract: This disclosure provides methods, compositions and kits for determining if nucleic acids detected in a sample such as a clinical sample are derived from contaminant pathogens or clinically-relevant pathogens.
    Type: Application
    Filed: May 27, 2020
    Publication date: September 17, 2020
    Applicant: KARIUS, INC.
    Inventors: Timothy A. BLAUWKAMP, Liza HUIJSE, Michael ROSEN, Igor D. VILFAN
  • Sample preparation methods, systems and compositions
    Patent number: 10697008
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Grant
    Filed: April 12, 2018
    Date of Patent: June 30, 2020
    Assignee: KARIUS, INC.
    Inventors: Timothy A. Blauwkamp, Rene Sit, Igor D. Vilfan
  • REDUCTION OF SIGNAL FROM CONTAMINANT NUCLEIC ACIDS
    Publication number: 20190256891
    Abstract: This disclosure provides methods that are useful for reducing or inactivating contaminant nucleic acids.
    Type: Application
    Filed: January 31, 2019
    Publication date: August 22, 2019
    Inventors: Timothy A. BLAUWKAMP, Fred CHRISTIANS, Michael ROSEN, Igor D. VILFAN
  • SAMPLE PREPARATION METHODS, SYSTEMS AND COMPOSITIONS
    Publication number: 20180371538
    Abstract: The disclosure provides methods, compositions, systems, and kits for the concurrent detection and analysis of different structural and chemical forms of nucleic acids in a sample.
    Type: Application
    Filed: April 12, 2018
    Publication date: December 27, 2018
    Inventors: Timothy A. Blauwkamp, Rene Sit, Igor D. Vilfan
  • SYNTHETIC NUCLEIC ACID SPIKE-INS
    Publication number: 20180237851
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Application
    Filed: April 16, 2018
    Publication date: August 23, 2018
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • Synthetic nucleic acid spike-ins
    Patent number: 9976181
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Grant
    Filed: March 24, 2017
    Date of Patent: May 22, 2018
    Assignee: KARIUS, INC.
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit
  • SYNTHETIC NUCLEIC ACID SPIKE-INS
    Publication number: 20170275691
    Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.
    Type: Application
    Filed: March 24, 2017
    Publication date: September 28, 2017
    Inventors: Fred C. Christians, Igor D. Vilfan, Michael Kertesz, Timothy A. Blauwkamp, Shivkumar Venkatasubrahmanyam, Michael Rosen, Rene Sit