Patents Assigned to Cold Spring Harbor Laboratory
  • Publication number: 20190249175
    Abstract: The present invention provides compounds comprising oligonucleotides complementary to a pyruvate kinase M transcript. Certain such compounds are useful for hybridizing to a pyruvate kinase M transcript, including but not limited to a pyruvate kinase M transcript in a cell. In certain embodiments, such hybridization results in modulation of splicing of the pyruvate kinase M transcript. In certain embodiments, such compounds are used to treat one or more symptoms associated with cancer.
    Type: Application
    Filed: October 2, 2018
    Publication date: August 15, 2019
    Applicants: Ionis Pharmaceuticals, Inc., Cold Spring Harbor Laboratory
    Inventors: Frank Rigo, C. Frank Bennett, Adrian R. Krainer, Zhenxun Wang
  • Publication number: 20190241901
    Abstract: The present disclosure provides methods for increasing meiotic recombination in crop plants, as well as plants and seeds produced by such methods.
    Type: Application
    Filed: June 29, 2017
    Publication date: August 8, 2019
    Applicants: Cold Spring Harbor Laboratory, Cambridge Enterprise Limited
    Inventors: Rob Martienssen, Charles Underwood, Ian Henderson
  • Publication number: 20190211330
    Abstract: Disclosed herein are compounds, compositions and methods for treatment of diseases and disorders, including spinal muscular atrophy.
    Type: Application
    Filed: November 1, 2018
    Publication date: July 11, 2019
    Applicants: Ionis Pharmaceuticals, Inc., Cold Spring Harbor Laboratory
    Inventors: Yimin Hua, Adrian R. Krainer, Frank Rigo, C. Frank Bennett
  • Patent number: 10344282
    Abstract: The present disclosure provides compounds comprising oligonucleotides complementary to a portion of the IKBKAP gene. Certain such compounds are useful for hybridizing to a portion of the IKBKAP gene, including but not limited to a portion of the IKBKAP gene in a cell. In certain embodiments, such hybridization results in modulation of splicing of the IKBKAP gene. In certain embodiments, the IKBKAP gene includes a mutation that results in defective splicing and a truncated IKAP protein. In certain embodiments, hybridization of oligonucleotides complementary to a portion of the IKBKAP gene results in a decrease in the amount of defective splicing and truncated IKAP protein. In certain embodiments, hybridization of oligonucleotides complementary to a portion of the IKBKAP gene results in an increase in the amount of normal splicing and functional, full-length IKAP protein. In certain embodiments, oligonucleotides are used to treat Familial Dysautonomia.
    Type: Grant
    Filed: May 30, 2018
    Date of Patent: July 9, 2019
    Assignees: IONIS PHARMACEUTICALS, INC., COLD SPRING HARBOR LABORATORY
    Inventors: C. Frank Bennett, Frank Rigo, Adrian R. Krainer, Rahul Sinha
  • Patent number: 10329562
    Abstract: Provided is an improved design of shRNA based on structural mimics of miR-451 precursors. These miR-451 shRNA mimics are channeled through a novel small RNA biogenesis pathway, require AGO2 catalysis and are processed by Drosha but are independent of DICER processing. This miRNA pathway feeds active elements only into Agog because of its unique catalytic activity. These data demonstrate that this newly identified small RNA biogenesis pathway can be exploited in vivo to produce active molecules.
    Type: Grant
    Filed: March 6, 2017
    Date of Patent: June 25, 2019
    Assignee: COLD SPRING HARBOR LABORATORY
    Inventors: Gregory J. Hannon, Sihem Cheloufi
  • Publication number: 20190153535
    Abstract: A method for obtaining from genomic material genomic copy number information unaffected by amplification distortion, comprising obtaining segments of the genomic material, tagging the segments with substantially unique tags to generate tagged nucleic acid molecules, such that each tagged nucleic acid molecule comprises one segment of the genomic material and a tag, subjecting the tagged nucleic acid molecules to polymerase chain reaction (PCR) amplification, generating tag associated sequence reads by sequencing the product of the PCR reaction, assigning each tagged nucleic acid molecule to a location on a genome associated with the genomic material by mapping the subsequence of each tag associated sequence read corresponding to a segment of the genomic material to a location on the genome, and counting the number of tagged nucleic acid molecules assigned to the same location on the genome having a different tag, thereby obtaining genomic copy number information unaffected by amplification distortion.
    Type: Application
    Filed: February 7, 2019
    Publication date: May 23, 2019
    Applicant: Cold Spring Harbor Laboratory
    Inventors: James Hicks, Nicholas Navin, Jennifer Troge, Zihua Wang, Michael Wigler
  • Patent number: 10266840
    Abstract: The present disclosure provides nucleic acids that confer a multi-seeded phenotype when expressed in plants and uses thereof.
    Type: Grant
    Filed: March 11, 2016
    Date of Patent: April 23, 2019
    Assignees: The United States of America as represented by the Secretary of Agriculture, Cold Spring Harbor Laboratory
    Inventors: Zhanguo Xin, Gloria B. Burow, Chad M Hayes, John J. Burke, Doreen Ware, Yinping Jiao
  • Patent number: 10253326
    Abstract: Genetically altered sorghum plants expressing the multi-seeded #2 phenotype contain one of two genomic alterations in the Sb06g018040 gene which result in reduced activity of the encoded protein, a class II 13-lipoxygenase. This phenotype and genotype are referred to as msd2. These alterations result in increased number of seeds and seed weight, thus increasing the yield of the genetically altered plant. These alterations can be generated in the ortholog genes in maize (TS1), rice, barley, and other monocot plants, generating the MSD2 phenotype. The seeds of one particular MSD2 Sorghum bicolor has been deposited with ATCC and assigned Accession Number PTA-121634.
    Type: Grant
    Filed: March 31, 2016
    Date of Patent: April 9, 2019
    Assignees: The United States of America, as represented by the Secretary of Agriculture, Cold Spring Harbor Laboratory
    Inventors: Zhanguo Xin, Gloria B. Burow, Chad M Hayes, John J. Burke, Doreen Ware, Yinping Jiao
  • Publication number: 20190071666
    Abstract: The present invention provides a composition comprising a plurality of labeled neurons, each of which is labeled by an expression construct that encodes a unique barcoded nucleic acid.
    Type: Application
    Filed: April 5, 2017
    Publication date: March 7, 2019
    Applicant: Cold Spring Harbor Laboratory
    Inventors: Anthony Zador, Justus Kebschull
  • Publication number: 20190030058
    Abstract: Disclosed herein are compounds, compositions and methods for modulating splicing of SMN2 mRNA in a subject. Also provided are uses of disclosed compounds and compositions in the manufacture of a medicament for treatment of diseases and disorders, including spinal muscular atrophy.
    Type: Application
    Filed: February 9, 2018
    Publication date: January 31, 2019
    Applicants: Biogen MA Inc., Cold Spring Harbor Laboratory
    Inventors: C. Frank Bennett, Gene Hung, Frank Rigo, Adrian R. Krainer, Yimin Hua, Marco A. Passini, Lamya Shihabuddin, Seng H. Cheng, Katherine W. Klinger
  • Patent number: 10188640
    Abstract: The present invention provides methods of treating cognitive deficits associated with mental retardation. The methods comprise combining cognitive training protocols and a general administration of phosphodiesterase 4 inhibitors.
    Type: Grant
    Filed: July 26, 2016
    Date of Patent: January 29, 2019
    Assignee: Cold Spring Harbor Laboratory
    Inventors: Timothy Tully, Filippo Cavalieri
  • Publication number: 20180371457
    Abstract: The present disclosure provides compounds comprising oligonucleotides complementary to a portion of the IKBKAP gene. Certain such compounds are useful for hybridizing to a portion of the IKBKAP gene, including but not limited to a portion of the IKBKAP gene in a cell. In certain embodiments, such hybridization results in modulation of splicing of the IKBKAP gene. In certain embodiments, the IKBKAP gene includes a mutation that results in defective splicing and a truncated IKAP protein. In certain embodiments, hybridization of oligonucleotides complementary to a portion of the IKBKAP gene results in a decrease in the amount of defective splicing and truncated IKAP protein. In certain embodiments, hybridization of oligonucleotides complementary to a portion of the IKBKAP gene results in an increase in the amount of normal splicing and functional, full-length IKAP protein. In certain embodiments, oligonucleotides are used to treat Familial Dysautonomia.
    Type: Application
    Filed: May 30, 2018
    Publication date: December 27, 2018
    Applicants: Ionis Pharmaceuticals, Inc., Cold Spring Harbor Laboratory
    Inventors: C. Frank Bennett, Frank Rigo, Adrian R. Krainer, Rahul Sinha
  • Publication number: 20180291376
    Abstract: Disclosed herein are compounds, compositions and methods for modulating splicing of SMN2 mRNA in a cell, tissue or animal. Also provided are uses of disclosed compounds and compositions in the manufacture of a medicament for treatment of diseases and disorders, including spinal muscular atrophy.
    Type: Application
    Filed: November 20, 2017
    Publication date: October 11, 2018
    Applicants: Biogen MA Inc., Cold Spring Harbor Laboratory
    Inventors: Brenda F. Baker, Adrian R. Krainer, Yimin Hua
  • Patent number: 9976143
    Abstract: Provided herein are methods and compositions for increasing production of a target protein or functional RNA by a cell.
    Type: Grant
    Filed: October 3, 2015
    Date of Patent: May 22, 2018
    Assignee: Cold Spring Harbor Laboratory
    Inventors: Adrian Krainer, Isabel Aznarez
  • Patent number: 9957514
    Abstract: The present disclosure provides methods and compositions for genetic transformation of Lemnaceae species.
    Type: Grant
    Filed: August 21, 2014
    Date of Patent: May 1, 2018
    Assignees: Cold Spring Harbor Laboratory, Brookhaven Science Associates, LLC
    Inventors: Rob Martienssen, Almudena Molla-Morales, Alex Cantó-Pastor, Evan Ernst, John Shanklin, Yiheng Yan
  • Publication number: 20180023139
    Abstract: Provided herein, in some aspects, are methods of determining whether a candidate protein, more specifically a functional domain of a candidate protein, is essential for viability of cells of interest using clustered regularly interspaced short palindromic repeat (CPJSPR)-Cas9 technology which holds great promise for genetic screening and for the discovery of therapeutic targets.
    Type: Application
    Filed: January 26, 2016
    Publication date: January 25, 2018
    Applicant: Cold Spring Harbor Laboratory
    Inventors: Christopher H. Vakoc, Junwei Shi, Justin B. Kinney
  • Patent number: 9850495
    Abstract: Methods and compositions for modulating shoot apical meristem size are provided. Methods are provided for modulating the expression of Fea4 sequence in a host plant or plant cell to modulate agronomic characteristics such as altered size and number of organs, including plant seeds.
    Type: Grant
    Filed: March 14, 2013
    Date of Patent: December 26, 2017
    Assignees: E. I. du Pont de Nemours And Company, Cold Spring Harbor Laboratory, Iowa State University Research Foundation, Inc.
    Inventors: Stephen M Allen, David Peter Jackson, Mai Komatsu, Michael Pautler, Hajime Sakai, Erik Vollbrecht, Rebecca Weeks
  • Patent number: 9845467
    Abstract: The present invention provides compounds and methods for modulating target nucleic acids found in organelles or sub-organelles of cells. The invention includes, but is not limited to compounds and methods that modulate target nucleic acids in a sub-nuclear organelle, such as the nucleolus and/or a cajal body. In certain embodiments, the cell is in an animal.
    Type: Grant
    Filed: March 4, 2016
    Date of Patent: December 19, 2017
    Assignees: Ionis Pharmaceuticals, Inc., Cold Spring Harbor Laboratory
    Inventors: Xue-hai Liang, Stanley T. Crooke, C. Frank Bennett, David L. Spector
  • Publication number: 20170342410
    Abstract: Provided is an improved design of shRNA based on structural mimics of miR-451 precursors. These miR-451 shRNA mimics are channeled through a novel small RNA biogenesis pathway, require AGO2 catalysis and are processed by Drosha but are independent of DICER processing. This miRNA pathway feeds active elements only into Agog because of its unique catalytic activity. These data demonstrate that this newly identified small RNA biogenesis pathway can be exploited in vivo to produce active molecules.
    Type: Application
    Filed: March 6, 2017
    Publication date: November 30, 2017
    Applicant: Cold Spring Harbor Laboratory
    Inventors: Gregory J. Hannon, Sihem Cheloufi
  • Patent number: 9815849
    Abstract: The invention provides compositions, methods, and kits for the treatment of acute myeloid leukemia in a subject.
    Type: Grant
    Filed: July 3, 2013
    Date of Patent: November 14, 2017
    Assignees: Dana-Farber Cancer Institute, Inc., Cold Spring Harbor Laboratory
    Inventors: James Elliott Bradner, Johannes Zuber, Junwei Shi, Christopher R. Vakoc, Scott W. Lowe, Constantine S. Mitsiades