Patents by Inventor Victor Lyamichev

Victor Lyamichev 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).

  • Charge tags and the separation of nucleic acid molecules
    Patent number: 7678542
    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: Grant
    Filed: June 3, 2008
    Date of Patent: March 16, 2010
    Assignee: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Zbigniev Skrzypczynski, Hatim T. Allawi, Sarah R. Wayland, Tsetska Y. Takova, Bruce P. Neri, James R. Prudent, Jeff G. Hall
  • METHODS AND APPLICATIONS FOR TARGET QUANTIFICATION
    Publication number: 20090299641
    Abstract: The present invention provides methods and software applications for quantifying a target in an experimental sample by collecting and processing initial signal data from the experimental sample and at least two standard control samples containing known target copy numbers. In this regards, the present invention allows the quantification of target copy number in the experimental sample.
    Type: Application
    Filed: September 8, 2008
    Publication date: December 3, 2009
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim T. Allawi, Victor Lyamichev, Rex Piper
  • Methods and Assays for Capture of Nucleic Acids
    Publication number: 20090246788
    Abstract: The present disclosure provides methods and systems for sequence specific nucleic acid target capture comprising enzymatic reactions. The present disclosure relates to a plurality of oligonucleotide probes for capture and subsequent detection of target nucleic acid sequences, using flap endonucleases, ligases, and/or additional enzymes, proteins or compounds, on substrates, for example microarray slides, and in solution formats.
    Type: Application
    Filed: March 20, 2009
    Publication date: October 1, 2009
    Applicant: ROCHE NIMBLEGEN, INC.
    Inventors: Thomas Albert, Jigar Patel, Victor Lyamichev
  • 3? end tagged oligonucleotides
    Patent number: 7582436
    Abstract: The present invention provides compositions comprising oligonucleotides that have 3? end groups (e.g. lipophilic moieties) that are useful in invasive cleavage reactions such as the INVADER assay. Specifically, the present invention provides compositions containing oligonucleotides with 3? end groups configured for generating a detectable signal in invasive cleavages assays with a high signal-to-background ratio, as well as methods for generating such compositions.
    Type: Grant
    Filed: April 18, 2007
    Date of Patent: September 1, 2009
    Assignee: Third Wave Technologies, Inc.
    Inventors: Jeff G. Hall, Zbigniev Skrzypczynski, Sarah Wayland, Ned D. Reimer, Luis P. Reynaldo, Joerg Baier, Victor Lyamichev, Bruce P. Neri
  • RNA Detection Assays
    Publication number: 20090142754
    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 30, 2007
    Publication date: June 4, 2009
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim T. Allawi, Brad T. Argue, Christian Tor Bartholomay, LuAnne Chehak, Michelle L. Curtis, Peggy S. Eis, Jeff G. Hall, Hon S. Ip, Lin Ji, Michael W. Kaiser, Robert W. Kwiatkowski, Andrew A. Lukowiak, Victor Lyamichev, Natalie E. Lyamicheva, WuPo Ma, Bruce P. Neri, Sarah M. Olson, Marilyn C. Olson-Munoz, James J. Schaefer, Zbigniev Skrzypczynski, Tsetska Y. Takova, Lisa C. Thompson, Kevin L. Vedvik
  • Reactions on a solid surface
    Patent number: 7527928
    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 solid support 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: December 4, 2002
    Date of Patent: May 5, 2009
    Assignee: Third Wave Technologies, Inc.
    Inventors: Bruce P. Neri, Jeff G. Hall, Victor Lyamichev, Lloyd M. Smith
  • CHARGE TAGS AND THE SEPARATION OF NUCLEIC ACID MOLECULES
    Publication number: 20090078574
    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 3, 2008
    Publication date: March 26, 2009
    Applicant: THIRD WAVE TECHNOLOGIES, INC.
    Inventors: Victor Lyamichev, Zbigniev Skrzypczynski, Hatim T. Allawi, Sarah R. Wayland, Tsetska Y. Takova, Bruce P. Neri, James R. Prudent, Jeff G. Hall
  • Nucleic Acid Accessible Hybridization Site Identification Using Mass Spectrometry
    Publication number: 20090075256
    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 using mass spectrometry. The present invention also provides methods and compositions for identifying oligonucleotides with desired hybridization properties to nucleic acid targets containing secondary structure using mass spectrometry.
    Type: Application
    Filed: June 15, 2007
    Publication date: March 19, 2009
    Applicant: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Hatim Taysir Allawi, Fang Dong, Bruce P. Neri, Tatiana I. Vener
  • AMPLIFICATION METHODS AND COMPOSITIONS
    Publication number: 20090068664
    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.
    Type: Application
    Filed: July 16, 2008
    Publication date: March 12, 2009
    Applicant: THIRD WAVE TECHNOLOGIES, INC.
    Inventors: Victor Lyamichev, Andrew Lukowiak, Nancy Jarvis, David Kurensky
  • Solid-phase reactions
    Patent number: 7485443
    Abstract: The present invention relates to systems, 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 attaching nucleic acids to solid supports and modifying nucleic acids. For example, in some embodiments, the 5? nuclease activity of a cleavage agent is used to cleave a cleavage structure formed on the solid support, the occurrence of the cleavage event indicating the presence of specific nucleic acid sequences.
    Type: Grant
    Filed: July 17, 2002
    Date of Patent: February 3, 2009
    Assignee: Northwestern University
    Inventors: Priscilla Wilkins Stevens, David Kelso, Victor Lyamichev, Jeff Hall, Bruce P. Neri, Robert W. Kwiatkowski, Jr., Lloyd Smith
  • Endonuclease-substrate complexes
    Patent number: 7482118
    Abstract: The present invention provides novel cleavage agents for the cleavage and modification of nucleic acid. The cleavage agents find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, an endonuclease activity 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: February 20, 2004
    Date of Patent: January 27, 2009
    Assignee: Third Wave Technologies, Inc.
    Inventors: Hatim T. Allawi, Michael W. Kaiser, Wu-Po Ma, Bruce P. Neri, Victor Lyamichev
  • RNA detection assays
    Publication number: 20080293046
    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: December 19, 2006
    Publication date: November 27, 2008
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim Allawi, Brad T. Argue, Christian Tor Bartholomay, LuAnne Chehak, Michelle L. Curtis, Peggy S. Eis, Jeff G. Hall, Hon S. Ip, Lin Ji, Michael Kaiser, Robert W. Kwiatkowski, JR., Andrew A. Lukowiak, Victor Lyamichev, Natalie E. Lyamicheva, WuPo Ma, Bruce P. Neri, Sarah M. Olson, Marilyn C. Olson-Munoz, James J. Schaefer, Zbigniev Skrzypczynski, Tsetska Y. Takova, Lisa C. Thompson, Kevin L. Vedvik
  • 3' end tagged oligonucleotides
    Publication number: 20080293930
    Abstract: The present invention provides compositions comprising oligonucleotides that have 3? end groups (e.g. lipophilic moieties) that are useful in invasive cleavage reactions such as the INVADER assay. Specifically, the present invention provides compositions containing oligonucleotides with 3? end groups configured for generating a detectable signal in invasive cleavages assays with a high signal-to-background ratio, as well as methods for generating such compositions.
    Type: Application
    Filed: April 18, 2007
    Publication date: November 27, 2008
    Inventors: Jeff G. Hall, Zbigniev Skrzypczynski, Sarah Wayland, Ned D. Reimer, Luis P. Reynaldo, Joerg Baier, Victor Lyamichev, Bruce P. Neri
  • Reactions on a solid surface
    Patent number: 7432048
    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 solid support 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: December 8, 2000
    Date of Patent: October 7, 2008
    Assignee: Third Wave Technologies, Inc.
    Inventors: Bruce P. Neri, Jeff G. Hall, Victor Lyamichev, Lloyd M. Smith
  • Detection of Small Nucleic Acids
    Publication number: 20080187926
    Abstract: The present invention relates to compositions and methods for the detection and characterization of interfering RNAs such as micro RNAs (miRNAs) and small interfering RNAs (siRNAs) and other short nucleic acid molecules. More particularly, the present invention relates to improved methods for the detection and quantitation of interfering RNA expression. The present invention further provides for the detection of variants and types of miRNAs and siRNAs.
    Type: Application
    Filed: October 30, 2007
    Publication date: August 7, 2008
    Applicant: THIRD WAVE TECHNOLOGIES, INC.
    Inventors: James E. Dahlberg, Hatim T. Allawi, Victor Lyamichev, Bruce P. Neri, Marilyn C. Olson-Munoz, LuAnne Chehak, Sarah M. Olson
  • Charge tags and the separation of nucleic acid molecules
    Patent number: 7384746
    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: Grant
    Filed: June 23, 2004
    Date of Patent: June 10, 2008
    Assignee: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Zbigniev Skrzypczynski, Hatim T. Allawi, Sarah R. Wayland, Tsetska Y. Takova, Bruce P. Neri, James R. Prudent, Jeff G. Hall
  • T-structure invasive cleavage assays, consistent nucleic acid dispensing, and low level target nucleic acid detection
    Publication number: 20080131870
    Abstract: The present invention relates to systems, methods and kits for low-level detection of nucleic acids, detecting at least two different viral sequences in a single reaction vessel, and increasing the dynamic range of detection of a viral target nucleic acid in a sample. The present invention also relates to T-structure invasive cleavage assays, as well as T-structure related target dependent non-target amplification methods and compositions. The present invention further relates to methods, compositions, devices and systems for consistent nucleic acid dispensing onto surfaces.
    Type: Application
    Filed: June 11, 2007
    Publication date: June 5, 2008
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim Taysir Allawi, Vecheslav A. Elagin, Victor A. Lyamichev, Kwok Wu, Walter Iszczyszyn, Chris Fleming, LuAnne Chehak, Scott M. Law
  • Detection of nucleic acids
    Publication number: 20080131890
    Abstract: The present invention relates to compositions and methods for the detection and characterization of small nucleic acid molecules (e.g., RNA (e.g., small RNAs such as micro RNAs (miRNAs) and small interfering RNAs (siRNAs)) and other short nucleic acid molecules). More particularly, the present invention relates to methods for the detection and quantification of RNA expression. The present invention further provides for the detection of miRNA and siRNA variants.
    Type: Application
    Filed: June 1, 2007
    Publication date: June 5, 2008
    Applicant: Third Wave Technologies, Inc.
    Inventors: Hatim T. Allawi, Victor Lyamichev
  • Nucleic acid cleavage assays
    Publication number: 20070292856
    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: July 19, 2006
    Publication date: December 20, 2007
    Applicant: Third Wave Technologies, Inc.
    Inventors: Victor Lyamichev, Michael Kaiser, Natalie Lyamichev, Jeff Hall, James Prudent, Mary Brow
  • Solid-phase reactions
    Patent number: 7303869
    Abstract: The present invention relates to systems, 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 attaching nucleic acids to solid supports and modifying nucleic acids. For example, in some embodiments, the 5? nuclease activity of a cleavage agent is used to cleave a cleavage structure formed on the solid support, the occurrence of the cleavage event indicating the presence of specific nucleic acid sequences.
    Type: Grant
    Filed: October 11, 2002
    Date of Patent: December 4, 2007
    Assignee: Northwestern University
    Inventors: Priscilla Wilkins Stevens, David Kelso, Victor Lyamichev, Jeff Hall, Bruce P. Neri, Robert W. Kwiatkowski, Jr., Lloyd M. Smith