Patents Assigned to Third Wave Technologies
  • FEN endonucleases
    Patent number: 7122364
    Abstract: The present invention provides novel cleavage agents and polymerases for the cleavage and modification of nucleic acid. The cleavage agents and polymerases find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, the 5? nuclease activity of a variety of enzymes is used to cleave a target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: November 17, 2000
    Date of Patent: October 17, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Victor I. Lyamichev, Michael W. Kaiser, Natasha Lyamicheva
  • Detection of allelic expression imbalance
    Publication number: 20060199202
    Abstract: The present invention provides compositions and methods for the detection and characterization of allelic expression imbalance from a heterozygous gene locus. More particularly, the present invention provides compositions, kits, and methods for the determination of allelic expression imbalance by the comparison of expression levels from each of two alleles of a given gene locus through the use of an invasive cleavage structure assay (e.g. the INVADER assay).
    Type: Application
    Filed: February 8, 2006
    Publication date: September 7, 2006
    Applicant: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Hatim Allawi
  • Target-dependent reactions using structure-bridging oligonucleotides
    Patent number: 7101672
    Abstract: The present invention relates to methods and compositions for analyzing nucleic acids. In particular, the present invention provides methods and compositions for the detection and characterization of nucleic acids and sequence changes. The methods of the present invention permit the detection and/or identification of genetic polymorphism such as those associated with human disease and permit the identification of pathogens (e.g., viral and bacterial strain identification).
    Type: Grant
    Filed: September 4, 2003
    Date of Patent: September 5, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Fang Dong, Victor I. Lyamichev, James R. Prudent, Lance Fors, Bruce P. Neri, Mary Ann D. Brow, Todd A. Anderson, James E. Dahlberg
  • FEN endonucleases
    Publication number: 20060183207
    Abstract: The present invention provides novel cleavage agents and polymerases for the cleavage and modification of nucleic acid. The cleavage agents and polymerases find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, the 5? nuclease activity of a variety of enzymes is used to cleave a target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Application
    Filed: October 27, 2005
    Publication date: August 17, 2006
    Applicant: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Michael Kaiser, Natasha Lyamicheva
  • Detection of target sequences by cleavage of non-target nucleic acids
    Patent number: 7087381
    Abstract: The present invention relates to means for cleaving a nucleic acid cleavage structure in a site-specific manner. Enzymes, including 5? nucleases and 3? exonucleases, we used to detect and identify nucleic acids derived from microorganisms. Methods are provided which allow for the detection and identification of bacterial and viral pathogens in a sample.
    Type: Grant
    Filed: August 28, 2001
    Date of Patent: August 8, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: James E. Dahlberg, Mary Ann D. Brow, Victor I. Lyamichev
  • Pharmacogenetic DME detection assay methods and kits
    Publication number: 20060160074
    Abstract: The present invention relates to methods for detecting polymorphisms in enzymes related to drug metabolizm (Drug Metabolizing Enzymes or DMEs) such as uridine diphosphate glucuronosyl transferase (UGT) gene promoter, cytochrome p450, with a non-amplified oligonucleotide detection assays. The present invention also relates to pharmacogenetic DME detection assay kits.
    Type: Application
    Filed: January 30, 2003
    Publication date: July 20, 2006
    Applicant: Third Wave Technologies, Inc.
    Inventors: Erin Dorn, Eric Rasmussen
  • Single step detection assay
    Publication number: 20060147955
    Abstract: The present invention provides methods and routines for developing and optimizing nucleic acid detection assays for use in basic research, clinical research, and for the development of clinical detection assays. In particular, the present invention provides methods for designing oligonucleotide primers to be used in multiplex amplification reactions. The present invention also provides methods to optimize multiplex amplification reactions. The present invention also provides methods for combined target and signal generation assays.
    Type: Application
    Filed: November 3, 2005
    Publication date: July 6, 2006
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim Allawi, Victor Lyamichev, Vecheslav Elagin, Scott Law, Jeff Hall
  • CFTR allele detection assays
    Publication number: 20060147938
    Abstract: The present invention provides compositions and methods for the detection and characterization of mutations associated with cystic fibrosis. More particularly, the present invention provides compositions, methods and kits for using invasive cleavage structure assays (e.g. the INVADER assay) to screen nucleic acid samples, e.g., from patients, for the presence of any one of a collection of mutations in the CFTR gene associated with cystic fibrosis. The present invention also provides compositions, methods and kits for screening sets of CFTR alleles in a single reaction container.
    Type: Application
    Filed: November 14, 2003
    Publication date: July 6, 2006
    Applicant: Third Wave Technologies, Inc.
    Inventors: Molly Accola, Susan Wigdal, Andrea Mast, Christian Bartholomay, Robert Kwiatkowski, Vincent Tevere, Hon Ip, Kathleen Carroll, Patrick Peterson, Poonam Agarwal, Nancy Jarvis, Jeff Hall, Robert Roeven
  • Systems for the detection of target sequences
    Patent number: 7067643
    Abstract: The present invention relates to means for cleaving a nucleic acid cleavage structure in a site-specific manner. Enzymes, including 5? nucleases and 3? exonucleases, are used to detect and identify nucleic acids derived from microorganisms. Methods are provided which allow for the detection and identification of bacterial and viral pathogens in a sample.
    Type: Grant
    Filed: August 28, 2001
    Date of Patent: June 27, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: James E. Dahlberg, Mary Ann D. Brow, Victor I. Lyamichev
  • Nucleic acid accessible hybridization sites
    Patent number: 7060436
    Abstract: The present invention relates to methods and compositions for analyzing nucleic acids, and in particular, methods and compositions for detection and characterization of nucleic acid sequences and sequence changes. The present invention also provides methods and compositions for identifying oligonucleotides with desired hybridization properties to nucleic acid targets containing secondary structure.
    Type: Grant
    Filed: June 15, 2001
    Date of Patent: June 13, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Hatim Allawi, Fang Dong, Bruce P. Neri, Tatiani I. Vener
  • Detection of RNA Sequences
    Patent number: 7045289
    Abstract: The present invention provides novel cleavage agents and polymerases for the cleavage and modification of nucleic acid. The cleavage agents and polymerases find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, the 5? nuclease activity of a variety of enzymes is used to cleave a target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: May 24, 2001
    Date of Patent: May 16, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Hatim Allawi, Christian Tor Bartholomay, LuAnne Chehak, Michelle L. Curtis, Peggy S. Eis, Jeff G. Hall, Hon S. Ip, Michael Kaiser, Robert W. Kwiatkowski, Jr., Andrew A. Lukowiak, Victor Lyamichev, WuPo Ma, Marilyn C. Olson-Munoz, Sarah M. Olson, James J. Schaefer, Zbigniew Skrzypczynski, Tsetska Y. Takova, Kevin L. Vedvik, Natalie Lyamichev, Bruce P. Neri
  • Invasive cleavage of nucleic acids
    Patent number: 7011944
    Abstract: The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: October 18, 2001
    Date of Patent: March 14, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: James R. Prudent, Jeff G. Hall, Victor I. Lyamichev, Mary Ann D. Brow, James E. Dahlberg
  • Reactive functional groups
    Publication number: 20050277138
    Abstract: The present invention relates to compositions and methods for the preparation of modified nucleic acids. In particular, the present invention provides novel reagents and chemistries for the generation of linkers, modified phosphoramidites, and modified solid supports.
    Type: Application
    Filed: April 26, 2005
    Publication date: December 15, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: Zbigniev Skrzypczynski, Sarah Wayland
  • Determination of hepatitis C virus genotype
    Publication number: 20050196750
    Abstract: The present invention provides compositions and methods for the detection and characterization of HCV sequences. More particularly, the present invention provides compositions, methods and kits for using invasive cleavage structure assays (e.g. the INVADER assay) to screen nucleic acid samples, e.g., from patients, to determine HCV genotype.
    Type: Application
    Filed: January 7, 2005
    Publication date: September 8, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: Vecheslav Elagin, Scott Law, Bjork Hill
  • Nucleic acid synthesizers
    Patent number: 6932943
    Abstract: The present invention relates to nucleic acid synthesizers and methods of using and modifying nucleic acid synthesizers. For example, the present invention provides highly efficient, reliable, and safe synthesizers that find use, for example, in high throughput and automated nucleic acid synthesis, as well as methods of modifying pre-existing synthesizers to improve efficiency, reliability, and safety.
    Type: Grant
    Filed: January 26, 2001
    Date of Patent: August 23, 2005
    Assignee: Third Wave Technologies
    Inventors: Raymond F. Cracauer, Zbigniev Skrzypczynski, Ned D. Reimer, Rocky Ganske
  • Nucleic acid detection compositions
    Publication number: 20050181435
    Abstract: The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The structure-specific nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Application
    Filed: April 12, 2005
    Publication date: August 18, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: James Prudent, Jeff Hall, Victor Lyamichev, Mary Brow, James Dahlberg
  • Nucleic acid detection kits
    Publication number: 20050158716
    Abstract: The present invention relates to means for cleaving a nucleic acid cleavage structure in a site-specific manner. Enzymes, including 5? nucleases and 3? exonucleases, are used to detect and identify nucleic acids derived from microorganisms. Methods are provided which allow for the detection and identification of bacterial and viral pathogens in a sample.
    Type: Application
    Filed: April 8, 2003
    Publication date: July 21, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: James Dahlberg, Mary Brow, Victor Lyamichev
  • Methods and compositions for detecting target sequences
    Patent number: 6913881
    Abstract: The present invention relates to compositions and methods for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. The present invention relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. For example, in some embodiments, a 5? nuclease activity from any of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: November 15, 2000
    Date of Patent: July 5, 2005
    Assignee: Third Wave Technologies, Inc.
    Inventors: Brian D. Aizenstein, Eric B. Rasmussen, Jeff G. Hall, Poonam Agarwal, David Arco, Myrta W. Atiles, Deborah E. Burris, Monika de Arruda Indig, Scott M. Law, Andrea L. Mast, David J. Marshall, Carolyn W. Miller, Mary C. Oldenberg, James R. Prudent, Jennifer M. Schneiders, Mary Ann Brow, Victor Lyamichev
  • Charge tags and the separation of nucleic acid molecules
    Publication number: 20050130179
    Abstract: The present invention relates to novel phosphoramidites, including positive and neutrally charged compounds. The present invention also provides charge tags for attachment to materials including solid supports and nucleic acids, wherein the charge tags increase or decrease the net charge of the material. The present invention further provides methods for separating and characterizing molecules based on the charge differentials between modified and unmodified materials.
    Type: Application
    Filed: June 23, 2004
    Publication date: June 16, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Zbigniev Skrzypczynski, Hatim Allawi, Sarah Wayland, Tsetska Takova, Bruce Neri, James Prudent, Jeff Hall
  • Nucleic acid analysis methods conducted in small reaction volumes
    Publication number: 20050106596
    Abstract: The present invention relates to reactions conducted on or in solid surface materials, including liquid phase reactions within capillary tubes and arrays of capillary tubes or open end reaction microchambers. A wide array of biomolecular and combinatorial synthesis reactions may be used with the present invention. For example, the present invention provides methods for forming and cleaving nucleic acid cleavage structures on or in solid surface materials.
    Type: Application
    Filed: August 27, 2004
    Publication date: May 19, 2005
    Applicant: Third Wave Technologies, Inc.
    Inventors: Zbigniev Skrzypczynski, Joerg Baier, Karl Nichols