Patents by Inventor Mark Aaron Behlke

Mark Aaron Behlke 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).

  • CRISPR-based compositions and methods of use
    Patent number: 9840702
    Abstract: This invention pertains to modified compositions for use in CRISPR systems, and their methods of use. In particular, length-modified and chemically-modified forms of crRNA and tracrRNA are described for use as a reconstituted guide RNA for interaction with Cas9 of CRIPSR systems. The resultant length-modified and chemically-modified forms of crRNA and tracrRNA are economical to produce and can be tailored to have unique properties relevant to their biochemical and biological activity in the context of the CRIPSR Cas9 endonuclease system.
    Type: Grant
    Filed: December 18, 2015
    Date of Patent: December 12, 2017
    Assignee: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Michael Allen Collingwood, Ashley Mae Jacobi, Garrett Richard Rettig, Mollie Sue Schubert, Mark Aaron Behlke
  • METHODS FOR VARIANT DETECTION
    Publication number: 20170260583
    Abstract: The invention can be used to provide a more efficient and less error-prone method of detecting variants in DNA, such as SNPs and indels. The invention also provides a method for performing inexpensive multiplex assays. The invention also provides methods for detection of DNA sequences altered after cleavage by a targetable endonuclease, such as the CRISPR Cas9 protein from the bacterium Streptococcus pyogenes.
    Type: Application
    Filed: May 24, 2017
    Publication date: September 14, 2017
    Inventors: Joseph Dobosy, Richard Owczarzy, Mark Aaron Behlke
  • METHODS FOR VARIANT DETECTION
    Publication number: 20170253925
    Abstract: The invention can be used to provide a more efficient and less error-prone method of detecting variants in DNA, such as SNPs and indels. The invention also provides a method for performing inexpensive multiplex assays. The invention also provides methods for detection of DNA sequences altered after cleavage by a targetable endonuclease, such as the CRISPR Cas9 protein from the bacterium Streptococcus pyogenes.
    Type: Application
    Filed: April 13, 2017
    Publication date: September 7, 2017
    Inventors: Joseph Dobosy, Caifu Chen, Mark Aaron Behlke, Garrett Richard Rettig
  • Modifications for Antisense Compounds
    Publication number: 20170204412
    Abstract: The invention pertains to modifications for antisense oligonucleotides, wherein the modifications are used to improve stability and provide protection from nuclease degradation. The modifications could also be incorporated into double-stranded nucleic acids, such as synthetic siRNAs and miRNAs.
    Type: Application
    Filed: November 23, 2016
    Publication date: July 20, 2017
    Inventors: Mark Aaron Behlke, Richard Owczarzy, Yong You, Joseph Alan Walder, Kim Lennox
  • METHODS FOR VARIANT DETECTION
    Publication number: 20170145486
    Abstract: The invention can be used to provide a more efficient and less error-prone method of detecting variants in DNA, such as SNPs and indels. The invention also provides a method for performing inexpensive multiplex assays.
    Type: Application
    Filed: November 25, 2016
    Publication date: May 25, 2017
    Inventors: Caifu CHEN, Joseph DOBOSY, Pak Wah TSANG, Mark Aaron BEHLKE, Scott ROSE, Kristin BELTZ, Garrett RETTIG
  • RNase H-based assays utilizing modified RNA monomers
    Patent number: 9644198
    Abstract: The present invention pertains to novel oligonucleotide compounds for use in various biological assays, such as nucleic acid amplification, ligation and sequencing reactions. The novel oligonucleotides comprise a ribonucleic acid domain and a blocking group at or near the 3? end of the oligonucleotide. These compounds offer an added level of specificity previously unseen. Methods for performing nucleic acid amplification, ligation and sequencing are also provided. Additionally, kits containing the oligonucleotides are also disclosed herein.
    Type: Grant
    Filed: August 5, 2013
    Date of Patent: May 9, 2017
    Assignee: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Joseph Alan Walder, Mark Aaron Behlke, Scott Rose, Joesph Dobosy
  • DNA POLYMERASE MUTANTS HAVING ENHANCED TEMPLATE DISCRIMINATION ACTIVITY
    Publication number: 20170114379
    Abstract: This invention relates to mutant DNA polymerases having an enhanced template discrimination activity compared with the corresponding unmodified DNA polymerase counterparts, wherein the amino acid sequence of the mutant DNA polymerase includes at least one substitution at residue positions structurally and functionally homologous or orthologous positions 783 or 784 of an unmodified Taq DNA polymerase.
    Type: Application
    Filed: December 21, 2016
    Publication date: April 27, 2017
    Inventors: Mark Aaron Behlke, Joseph A. Walder, Richard Owczarzy, Scott D. Rose, Joseph R. Dobosy, Susan M. Rupp
  • TM-ENHANCED BLOCKING OLIGONUCLEOTIDES AND BAITS FOR IMPROVED TARGET ENRICHMENT AND REDUCED OFF-TARGET SELECTION
    Publication number: 20170114404
    Abstract: The invention is directed to modified oligonucleotide compositions and methods for selectively reducing unwanted nucleic acid contaminants and enriching for desired nucleic acid targets from complex genomic nucleic acid mixtures for sequencing applications. The modified oligonucleotide compositions include one or more modified groups that increase the Tm of the resultant oligonucleotide composition.
    Type: Application
    Filed: October 15, 2016
    Publication date: April 27, 2017
    Inventors: Mark Aaron Behlke, John Robert Havens, Scott Daniel Rose
  • Tm-ENHANCED BLOCKING OLIGONUCLEOTIDES AND BAITS FOR IMPROVED TARGET ENRICHMENT AND REDUCED OFF-TARGET SELECTION
    Publication number: 20170096706
    Abstract: The invention is directed to modified oligonucleotide compositions and methods for selectively reducing unwanted nucleic acid contaminants and enriching for desired nucleic acid targets from complex genomic nucleic acid mixtures for sequencing applications. The modified oligonucleotide compositions include one or more modified groups that increase the Tm of the resultant oligonucleotide composition.
    Type: Application
    Filed: October 15, 2016
    Publication date: April 6, 2017
    Inventors: Mark Aaron Behlke, John Robert Havens, Scott Daniel Rose, Mirna Jarosz, Zachary Zwirko, Doron Lipson, Frank Soo Juhn
  • CRISPR-BASED COMPOSITIONS AND METHODS OF USE
    Publication number: 20170044537
    Abstract: This invention pertains to modified compositions for use in CRISPR systems, and their methods of use. In particular, length-modified and chemically-modified forms of crRNA and tracrRNA are described for use as a reconstituted guide RNA for interaction with Cas9 of CRISPR systems. The resultant length-modified and chemically-modified forms of crRNA and tracrRNA are economical to produce and can be tailored to have unique properties relevant to their biochemical and biological activity in the context of the CRISPR Cas9 endonuclease system.
    Type: Application
    Filed: October 21, 2016
    Publication date: February 16, 2017
    Applicant: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Michael Allen Collingwood, Ashley Mae Jacobi, Garrett Richard Rettig, Mollie Sue Schubert, Mark Aaron Behlke
  • CRISPR-BASED COMPOSITIONS AND METHODS OF USE
    Publication number: 20170044536
    Abstract: This invention pertains to modified compositions for use in CRISPR systems, and their methods of use. In particular, length-modified and chemically-modified forms of crRNA and tracrRNA are described for use as a reconstituted guide RNA for interaction with Cas9 of CRISPR systems. The resultant length-modified and chemically-modified forms of crRNA and tracrRNA are economical to produce and can be tailored to have unique properties relevant to their biochemical and biological activity in the context of the CRISPR Cas9 endonuclease system.
    Type: Application
    Filed: October 21, 2016
    Publication date: February 16, 2017
    Applicant: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Michael Allen Collingwood, Ashley Mae Jacobi, Garrett Richard Rettig, Mollie Sue Schubert, Mark Aaron Behlke
  • MODIFIED RNASE H ENZYMES AND THEIR USES
    Publication number: 20170044507
    Abstract: The invention provides a provides improvements to assays that employ RNase H cleavage for biological applications related to nucleic acid amplification and detection, where the RNase H has been reversibly inactivated.
    Type: Application
    Filed: March 23, 2016
    Publication date: February 16, 2017
    Inventors: Joseph Alan WALDER, Mark Aaron BEHLKE, Scott D. ROSE, Joseph DOBOSY, Susan Marie RUPP
  • CRISPR-BASED COMPOSITIONS AND METHODS OF USE
    Publication number: 20170044535
    Abstract: This invention pertains to modified compositions for use in CRISPR systems, and their methods of use. In particular, length-modified and chemically-modified forms of crRNA and tracrRNA are described for use as a reconstituted guide RNA for interaction with Cas9 of CRISPR systems. The resultant length-modified and chemically-modified forms of crRNA and tracrRNA are economical to produce and can be tailored to have unique properties relevant to their biochemical and biological activity in the context of the CRISPR Cas9 endonuclease system.
    Type: Application
    Filed: October 21, 2016
    Publication date: February 16, 2017
    Applicant: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Michael Allen Collingwood, Ashley Mae Jacobi, Garrett Richard Rettig, Mollie Sue Schubert, Mark Aaron Behlke
  • Fluorescence quenching azo dyes, their methods of preparation and use
    Patent number: 9540515
    Abstract: Disclosed is a group of azo quencher compositions useful as fluorescence quenchers having the general structure of formula 1, methods of making or using the compositions, and kits comprising the composition.
    Type: Grant
    Filed: January 9, 2013
    Date of Patent: January 10, 2017
    Assignee: Integrated DNA Technologies, Inc.
    Inventors: Andrei Laikhter, Mark Aaron Behlke, Joseph Walder, Kevin William Roberts, Yawfui Yong
  • Modifications for antisense compounds
    Patent number: 9506059
    Abstract: The invention pertains to modifications for antisense oligonucleotides, wherein the modifications are used to improve stability and provide protection from nuclease degradation. The modifications could also be incorporated into double-stranded nucleic acids, such as synthetic siRNAs and miRNAs.
    Type: Grant
    Filed: September 26, 2014
    Date of Patent: November 29, 2016
    Assignee: Integrated DNA Technologies, Inc.
    Inventors: Mark Aaron Behlke, Richard Owczarzy, Yong You, Joseph Alan Walder, Kim Lennox
  • Modifications for antisense compounds
    Patent number: 9506057
    Abstract: The invention pertains to modifications for antisense oligonucleotides, wherein the modifications are used to improve stability and provide protection from nuclease degradation. The modifications could also be incorporated into double-stranded nucleic acids, such as synthetic siRNAs and miRNAs.
    Type: Grant
    Filed: February 25, 2013
    Date of Patent: November 29, 2016
    Assignee: Integrated DNA Technologies, Inc.
    Inventors: Mark Aaron Behlke, Kimberly Ann Lennox, Ashley Mae Jacobi, Richard Owczarzy, Joseph Alan Walder
  • RNase H-based assays utilizing modified RNA monomers
    Patent number: 9434988
    Abstract: The present invention provides methods of cleaving a nucleic acid strand to initiate, assist, monitor or perform biological assays.
    Type: Grant
    Filed: March 23, 2012
    Date of Patent: September 6, 2016
    Assignee: Integrated DNA Technologies, Inc.
    Inventors: Mark Aaron Behlke, Scott D. Rose, Joseph Dobosy, Joseph Alan Walder
  • CRISPR-BASED COMPOSITIONS AND METHODS OF USE
    Publication number: 20160177304
    Abstract: This invention pertains to modified compositions for use in CRISPR systems, and their methods of use. In particular, length-modified and chemically-modified forms of crRNA and tracrRNA are described for use as a reconstituted guide RNA for interaction with Cas9 of CRIPSR systems. The resultant length-modified and chemically-modified forms of crRNA and tracrRNA are economical to produce and can be tailored to have unique properties relevant to their biochemical and biological activity in the context of the CRIPSR Cas9 endonuclease system.
    Type: Application
    Filed: December 18, 2015
    Publication date: June 23, 2016
    Applicant: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Michael Allen Collingwood, Ashley Mae Jacobi, Garrett Richard Rettig, Mollie Sue Schubert, Mark Aaron Behlke
  • RNASE H-BASED ASSAYS UTILIZING MODIFIED RNA MONOMERS
    Publication number: 20150307917
    Abstract: Methods and compositions are provided for improving specificity during amplification of a target DNA sequence. The methods and compositions rely upon the use of an RNase H enzyme, a polymerase, and RNase H enzyme-sensitive, blocked-cleavable oligonucleotide primers in the amplification reactions, wherein the reaction mixtures include either an optimized final concentration of a divalent metal salt comprising 2.0 mM or less of free Mg++ cation and/or an optimized final concentration of a non-ionic detergent comprising at least about 0.001% polyethylene glycol hexadecyl ether.
    Type: Application
    Filed: December 2, 2013
    Publication date: October 29, 2015
    Inventors: Joseph Alan Walder, Mark Aaron Behlke, Scott D. Rose, Joseph R. Dobosy, Susan M. Rupp
  • RNASE H-BASED ASSAYS UTILIZING MODIFIED RNA MONOMERS
    Publication number: 20150225782
    Abstract: The present invention pertains to novel oligonucleotide compounds for use in various biological assays, such as nucleic acid amplification, ligation and sequencing reactions. The novel oligonucleotides comprise a ribonucleic acid domain and a blocking group at or near the 3? end of the oligonucleotide. These compounds offer an added level of specificity previously unseen. Methods for performing nucleic acid amplification, ligation and sequencing are also provided. Additionally, kits containing the oligonucleotides are also disclosed herein.
    Type: Application
    Filed: November 7, 2014
    Publication date: August 13, 2015
    Inventors: Joseph Alan WALDER, Mark Aaron BEHLKE, Scott ROSE, Josesph DOBOSY