Patents Assigned to Five3 Genomics, LLC
  • Systems, methods, and compositions for viral-associated tumors
    Patent number: 11361844
    Abstract: Contemplated systems and methods employ chimeric reference sequences that include a plurality of viral genome sequences to identify/quantify integration and co-amplification events. Most typically, the viral genome sequences are organized in the chimeric reference sequences as single chromosomes and the chimeric reference sequences are in BAM format.
    Type: Grant
    Filed: July 11, 2018
    Date of Patent: June 14, 2022
    Assignee: Five3 Genomics, LLC
    Inventors: John Zachary Sanborn, Charles Joseph Vaske, Stephen Charles Benz, Shahrooz Rabizadeh, Nicole Hensley, Patrick Soon-Shiong
  • Systems and methods for tumor clonality analysis
    Patent number: 11183269
    Abstract: Systems and methods of genomic analysis are presented that provide a framework to determine a tumor's clonality, the number and proportion of all major clones, and the variants that distinguish them. Contemplated systems and methods also allow phasing mutations to parental alleles to so time their emergence within the population of tumor cells, and provide an accurate estimate of the amount of contaminating normal tissue that was present in the tumor biopsy.
    Type: Grant
    Filed: November 7, 2013
    Date of Patent: November 23, 2021
    Assignee: Five3 Genomics, LLC
    Inventor: John Zachary Sanborn
  • MDM2-containing double minute chromosomes and methods therefore
    Patent number: 10961586
    Abstract: Contemplated systems and methods allow for computational genomic analysis using paired-end sequence analysis and split read refinement to thereby identify high-confidence breakpoints associated with high copy numbers and orientation of rearrangements, which is then the basis for full reconstruction of double minutes (DM). In especially preferred aspects, the DM will also include an oncogene or tumor suppressor gene, and/or may be found in blood or blood derived fluids.
    Type: Grant
    Filed: February 22, 2017
    Date of Patent: March 30, 2021
    Assignee: Five3 Genomics, LLC
    Inventors: John Zachary Sanborn, Charles Joseph Vaske, Stephen Charles Benz
  • MDM2-containing double minute chromosomes and methods therefore
    Patent number: 10774384
    Abstract: Contemplated systems and methods allow for computational genomic analysis using paired-end sequence analysis and split read refinement to thereby identify high-confidence breakpoints associated with high copy numbers and orientation of rearrangements, which is then the basis for full reconstruction of double minutes (DM). In especially preferred aspects, the DM will also include an oncogene or tumor suppressor gene, and/or may be found in blood or blood derived fluids.
    Type: Grant
    Filed: April 15, 2016
    Date of Patent: September 15, 2020
    Assignee: Five3 Genomics, LLC
    Inventors: John Zachary Sanborn, Charles Joseph Vaske, Stephen Charles Benz
  • Distributed system providing dynamic indexing and visualization of genomic data
    Patent number: 10733701
    Abstract: Systems and methods for dynamic visualization of genomic data are provided in which a genomic visualization system adapts presentation of information content according to scale-relevant annotations within a sequence object.
    Type: Grant
    Filed: October 24, 2018
    Date of Patent: August 4, 2020
    Assignee: Five3 Genomics, LLC
    Inventors: Charles Joseph Vaske, John Zachary Sanborn, Stephen Charles Benz
  • Systems, methods, and compositions for viral-associated tumors
    Patent number: 10176295
    Abstract: Contemplated systems and methods employ chimeric reference sequences that include a plurality of viral genome sequences to identify/quantify integration and co-amplification events. Most typically, the viral genome sequences are organized in the chimeric reference sequences as single chromosomes and the chimeric reference sequences are in BAM format.
    Type: Grant
    Filed: September 26, 2014
    Date of Patent: January 8, 2019
    Assignees: Five3 Genomics, LLC, Nant Holdings IP, LLC
    Inventors: John Zachary Sanborn, Charles Joseph Vaske, Stephen Charles Benz, Shahrooz Rabizadeh, Nicole Hensley, Patrick Soon-Shiong