Patents by Inventor Pavel Bondarenko

Pavel Bondarenko 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).

  • Patent number: 11993663
    Abstract: The present invention concerns a method for preparing antigen binding proteins specific for PCSK9 with reduced viscosity. The method proceeds by replacing residues in high viscosity variable domain subfamilies with residues in correlating low viscosity subfamilies. The method further comprises substituting residues in the Fc domain with residues associated with low viscosity and adding charged residues to the C-terminus of the Fc domain. The present invention further concerns antigen binding proteins produced by this method.
    Type: Grant
    Filed: June 11, 2021
    Date of Patent: May 28, 2024
    Assignee: AMGEN INC.
    Inventors: Joon Hoi Huh, Riki Stevenson, Pavel Bondarenko, Andrew Nichols, Da Ren, Neeraj Jagdish Agrawal, Richard Smith
  • Publication number: 20230349912
    Abstract: Provided herein are methods of processing a polypeptide or protein for analysis, e.g., peptide mapping analysis by mass spectrometry. In exemplary embodiments, the method comprises incubating a digested sample at a mildly acidic pH and/or in the presence of a chaotrope, wherein the digested sample is produced by digesting a polypeptide with a protease to produce a digested sample comprising at least two peptides. In exemplary embodiments, the method comprises digesting the polypeptide with a protease which cleaves C-terminal to tryptophan to produce a digested sample comprising at least two peptides. In exemplary embodiments, the method comprises digesting the polypeptide with trypsin at an enzyme:substrate (E:S) weight ratio of about 1:1 to about 1:15 to produce a digested sample comprising at least two peptides. In exemplary aspects, the digested sample comprises at least one or two peptides each comprising a tyrosine at the C-terminus.
    Type: Application
    Filed: September 17, 2021
    Publication date: November 2, 2023
    Applicant: AMGEN INC.
    Inventors: Gang XIAO, Pavel BONDARENKO, Liuqing SHI, Thomas M. DILLON, Da REN, Margaret Speed RICCI, Weidong CUI, John Joseph HARRAHY, Jake PAWLOWSKI, Andrew DYKSTRA, Dylan RIGGS
  • Publication number: 20220260584
    Abstract: Provided herein are methods of identifying structures, e.g., attributes, of a therapeutic protein or a target that affect an interaction between the therapeutic protein and the target. In exemplary embodiments, the method comprises: (a) applying a stress to a first sample comprising therapeutic proteins or targets; (b) contacting the first sample with a second sample comprising targets or therapeutic proteins to form a mixture comprising (i) therapeutic protein-target complexes, (ii) unbound therapeutic proteins, and (iii) unbound targets; and (c) separating the mixture into at least two fractions, wherein an unbound fraction comprises unbound therapeutic proteins or unbound targets and a bound fraction comprises therapeutic protein-target complexes; and (d) for each of the unbound fraction and bound fraction, identifying and quantifying the abundance of the structures, e.g., attribute, present on a species of the therapeutic protein or target.
    Type: Application
    Filed: June 5, 2020
    Publication date: August 18, 2022
    Inventors: Pavel BONDARENKO, Scott Thomas KUHNS, Andrew NICHOLS, Gang XIAO, Liuqing SHI, Jill A. CROUSE-ZEINEDDINI
  • Patent number: 11254963
    Abstract: The present invention relates to a method for manipulating the high mannose glycoform content of recombinant glycoproteins by regulating ornithine metabolism during cell culture.
    Type: Grant
    Filed: November 6, 2019
    Date of Patent: February 22, 2022
    Assignee: Amgen Inc.
    Inventors: Sohye Kang, Chung Huang, Jr., Hedieh Barkhordarian, Pavel Bondarenko, Zhongqi Zhang
  • Publication number: 20210395298
    Abstract: The present invention provides an improved manufacturing method for the production of bispecific antibody products, which comprise at least two binding domains. The process comprises at least the method comprising a step of refolding the construct, wherein one or more of the domains comprise a disulfide bond, and wherein the construct is contacted with a refolding buffer to refold the construct to its native form, the buffer comprising (i) a redox and/or oxidizing agent having a concentration of at least 0.1 mM and (ii) a chaotropic agent having a concentration >1 M, and wherein the pH of the refolding buffer corresponds to +/?4.5 of the pI value of the first domain or +/?4.0 of the pI value of the entire construct.
    Type: Application
    Filed: October 11, 2019
    Publication date: December 23, 2021
    Inventors: Pavel Bondarenko, Pik Chan, Neil Soice
  • Publication number: 20210371544
    Abstract: The present invention concerns a method for preparing antigen binding proteins specific for PCSK9 with reduced viscosity. The method proceeds by replacing residues in high viscosity variable domain subfamilies with residues in correlating low viscosity subfamilies. The method further comprises substituting residues in the Fc domain with residues associated with low viscosity and adding charged residues to the C-terminus of the Fc domain. The present invention further concerns antigen binding proteins produced by this method.
    Type: Application
    Filed: June 11, 2021
    Publication date: December 2, 2021
    Applicant: AMGEN INC.
    Inventors: JOON HOI HUH, RIKI STEVENSON, PAVEL BONDARENKO, ANDREW NICHOLS, DA REN, NEERAJ JAGDISH AGRAWAL, RICHARD SMITH
  • Patent number: 11059908
    Abstract: The present invention concerns a method for preparing antigen binding proteins with reduced viscosity. The method proceeds by replacing residues in high viscosity variable domain subfamilies with residues in correlating low viscosity subfamilies. The method further comprises substituting residues in the Fc domain with residues associated with low viscosity and adding charged residues to the C-terminus of the Fc domain. The present invention further concerns antigen binding proteins produced by this method.
    Type: Grant
    Filed: September 28, 2017
    Date of Patent: July 13, 2021
    Assignee: AMGEN INC.
    Inventors: Joon Hoi Huh, Riki Stevenson, Pavel Bondarenko, Andrew Nichols, Da Ren, Neeraj Jagdish Agrawal
  • Publication number: 20210087286
    Abstract: Methods of treating metabolic diseases and disorders using an antigen binding protein specific for the GIPR polypeptide are provided. In various embodiments the metabolic disease or disorder is type 2 diabetes, obesity, dyslipidemia, elevated glucose levels, elevated insulin levels and diabetic nephropathy. In certain embodiments the antigen binding protein is administered in combination with a GLP-1 receptor agonist.
    Type: Application
    Filed: June 20, 2018
    Publication date: March 25, 2021
    Applicant: AMGEN INC.
    Inventors: Darren L. BATES, Donghui SHI, David J. LLOYD, Pavel BONDARENKO, Mark L. MICHAELS, Todd HAGER, Xiaoshan MIN, Aiko UMEDA, Irwin CHEN, Zhulun WANG
  • Publication number: 20200071738
    Abstract: The present invention relates to a method for manipulating the high mannose glycoform content of recombinant glycoproteins by regulating ornithine metabolism during cell culture.
    Type: Application
    Filed: November 6, 2019
    Publication date: March 5, 2020
    Applicant: Amgen Inc.
    Inventors: Sohye KANG, Chung HUANG, JR., Hedieh BARKHORDARIAN, Pavel BONDARENKO, Zhongqi ZHANG
  • Patent number: 10513723
    Abstract: The present invention relates to a method for manipulating the high mannose glycoform content of recombinant glycoproteins by regulating ornithine metabolism during cell culture.
    Type: Grant
    Filed: December 9, 2014
    Date of Patent: December 24, 2019
    Inventors: Sohye Kang, Chung Huang, Jr., Hedieh Barkhordarian, Pavel Bondarenko, Zhongqi Zhang
  • Publication number: 20190233543
    Abstract: The present invention concerns a method for preparing antigen binding proteins with reduced viscosity. The method proceeds by replacing residues in high viscosity variable domain subfamilies with residues in correlating low viscosity subfamilies. The method further comprises substituting residues in the Fc domain with residues associated with low viscosity and adding charged residues to the C-terminus of the Fc domain. The present invention further concerns antigen binding proteins produced by this method.
    Type: Application
    Filed: September 28, 2017
    Publication date: August 1, 2019
    Applicant: AMGEN INC.
    Inventors: Neeraj Jagdish AGRAWAL, Pavel BONDARENKO, Joon Hoi HUH, Andrew NICHOLS, Da REN, Richard SMITH, Riki STEVENSON
  • Publication number: 20180105589
    Abstract: The present invention is generally directed to methods of producing an increase in the enrichment and/or recovery of preferred forms of monoclonal antibodies. More particularly, the invention relates to methods for eliminating disulfide heterogeneity in the hinge region of recombinant IgG2 antibody proteins.
    Type: Application
    Filed: September 5, 2017
    Publication date: April 19, 2018
    Inventors: Thomas M. DILLON, Pavel BONDARENKO, Jette WYPYCH, Martin J. ALLEN, Alain BALLAND, Margaret Speed RICCI, Amy GUO, Wenyan SHEN, Jeonghoon SUN, Christopher J. VEZINA
  • Publication number: 20160333385
    Abstract: The present invention relates to a method for manipulating the high mannose glycoform content of recombinant glycoproteins by regulating ornithine metabolism during cell culture.
    Type: Application
    Filed: December 9, 2014
    Publication date: November 17, 2016
    Applicant: AMGEN INC.
    Inventors: Sohye KANG, Chung HUANG, Jr., Hedieh BARKHORDARIAN, Pavel BONDARENKO, Zhongqi ZHANG
  • Publication number: 20140371427
    Abstract: Methods for producing an IgG2 antibody preparation enriched for one of several IgG2 structural isoforms, differing by disulfide connectivity in the hinge region of the antibody, are disclosed.
    Type: Application
    Filed: December 7, 2012
    Publication date: December 18, 2014
    Applicant: AMGEN INC.
    Inventors: Thomas M. Dillon, Yi-Te Chou, Yautyan Chen, Pavel Bondarenko, Jed J. Wiltzius, Diana Woehle
  • Patent number: 8241632
    Abstract: The invention provides a formulation including a buffer having a pH less than 6.0, a divalent cation between about 5-200 mM, an excipient comprising a sugar or polyol and an effective amount of a therapeutic polypeptide. Also provided is a method of stabilizing a polypeptide. The method includes contacting a therapeutic polypeptide with a concentration of divalent cation between about 5-150 150 mM in a buffer having a pH less than 6.0 and an excipient comprising a sugar or polyol.
    Type: Grant
    Filed: March 5, 2010
    Date of Patent: August 14, 2012
    Assignee: Amgen Inc.
    Inventors: Douglas Rehder, Pavel Bondarenko, Dirk Chelius, Arnold McAuley, Masazumi Matsumura
  • Patent number: 7928205
    Abstract: The present invention is generally directed to methods of producing an increase in the enrichment or recovery of preferred forms of IgG proteins. More particularly, the invention relates to subjecting preparations of such recombinant IgG proteins with a reduction/oxidation coupling reagent and optionally a chaotropic agent.
    Type: Grant
    Filed: October 21, 2005
    Date of Patent: April 19, 2011
    Assignee: Amgen Inc.
    Inventors: Thomas M. Dillon, Douglas Rehder, Pavel Bondarenko, Margaret Ricci, Himanshu S. Gadgil, Douglas D. Banks, Joe Zhou, Yuefeng Lu, Andrew Goetze, Yuling Zhang
  • Publication number: 20100226925
    Abstract: The present invention is generally directed to methods of producing an increase in the enrichment and/or recovery of preferred forms of monoclonal antibodies. More particularly, the invention relates to methods for eliminating disulfide heterogeneity in the hinge region of recombinant IgG2 antibody proteins.
    Type: Application
    Filed: September 11, 2008
    Publication date: September 9, 2010
    Applicant: AMGEN INC.
    Inventors: Thomas M. Dillon, Pavel Bondarenko, Jette Wypych, Martin J. Allen, Alain Balland, Margaret Speed Ricci, Amy Guo, Wenyan Shen, Jeonghoon Sun, Chris Vezina
  • Publication number: 20100158908
    Abstract: The invention provides a formulation including a buffer having a pH less than 6.0, a divalent cation between about 5-200 mM, an excipient comprising a sugar or polyol and an effective amount of a therapeutic polypeptide. Also provided is a method of stabilizing a polypeptide. The method includes contacting a therapeutic polypeptide with a concentration of divalent cation between about 5-150 150 mM in a buffer having a pH less than 6.0 and an excipient comprising a sugar or polyol.
    Type: Application
    Filed: March 5, 2010
    Publication date: June 24, 2010
    Inventors: Douglas Rehder, Pavel Bondarenko, Dirk Chelius, Arnold Mcauley, Masazumi Matsumura
  • Patent number: 7705132
    Abstract: The invention provides a formulation including a buffer having a pH less than 6.0, a divalent cation between about 5-200 mM, an excipient comprising a sugar or polyol and an effective amount of a therapeutic polypeptide. Also provided is a method of stabilizing a polypeptide. The method includes contacting a therapeutic polypeptide with a concentration of divalent cation between about 5-150 150 mM in a buffer having a pH less than 6.0 and an excipient comprising a sugar or polyol.
    Type: Grant
    Filed: October 5, 2007
    Date of Patent: April 27, 2010
    Assignee: Amgen Inc.
    Inventors: Douglas Rehder, Pavel Bondarenko, Dirk Chelius, Arnold McAuley, Masazumi Matsumura
  • Publication number: 20080124326
    Abstract: The invention provides a formulation including a buffer having a pH less than 6.0, a divalent cation between about 5-200 mM, an excipient comprising a sugar or polyol and an effective amount of a therapeutic polypeptide. Also provided is a method of stabilizing a polypeptide. The method includes contacting a therapeutic polypeptide with a concentration of divalent cation between about 5-150 150 mM in a buffer having a pH less than 6.0 and an excipient comprising a sugar or polyol.
    Type: Application
    Filed: October 5, 2007
    Publication date: May 29, 2008
    Applicant: Amgen Inc.
    Inventors: Douglas Rehder, Pavel Bondarenko, Dirk Chelius, Arnold McAuley, Masazumi Matsumura