Patents by Inventor Zihni Basar Bilgicer
Zihni Basar Bilgicer 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).
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Publication number: 20240343835Abstract: A strategy for site specific covalent modification of antibodies using a specialized targeting covalent heterobivalent ligand (cHBL), and corresponding design for a covalent heterobivalent inhibitor (cHBI) that can be used to prevent Immunoglobulin E (IgE) mediated allergic reactions triggered by drug molecules, according to one embodiment. These molecules contain four important components: (1) an IgE antigen binding site (ABS) ligand that can be a mimotope for the allergen protein, a small molecule, or a peptidomimetic, (2) an appropriate linker, which can be any flexible or rigid chemical linker, providing spacing between the ABS binder and the other moieties, (3) a nucleotide binding site (NBS) ligand, and (4) a reactive moiety to form a covalent link with an amino acid side chain of target IgE antibodies.Type: ApplicationFiled: June 6, 2024Publication date: October 17, 2024Applicant: UNIVERSITY OF NOTRE DAME DU LACInventors: Zihni Basar BILGICER, Peter Edward DEAK, Tanyel KIZILTEPE BILGICER, Michael William HANDLOGTEN, Jonathan Darryl ASHLEY
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Patent number: 12018092Abstract: The invention provides a strategy for site specific covalent modification of antibodies using a specialized targeting covalent heterobivalent ligand (cHBL), and corresponding design for a covalent heterobivalent inhibitor (cHBI) that can be used to prevent Immunoglobulin E (IgE) mediated allergic reactions triggered by drug molecules, according to one embodiment. These molecules contain four important components: (1) an IgE antigen binding site (ABS) ligand that can be a mimotope for the allergen protein, a small molecule, or a peptidomimetic, (2) an appropriate linker, which can be any flexible or rigid chemical linker, providing spacing between the ABS binder and the other moieties, (3) a nucleotide binding site (NBS) ligand, and (4) a reactive moiety to form a covalent link with an amino acid side chain of target IgE antibodies.Type: GrantFiled: December 18, 2020Date of Patent: June 25, 2024Assignee: University of Notre Dame Du LacInventors: Zihni Basar Bilgicer, Peter Edward Deak, Tanyel Kiziltepe Bilgicer, Michael William Handlogten, Jonathan Darryl Ashley
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Patent number: 11638763Abstract: Embodiments of the present disclosure provide a nanoparticle based platform, and nanoallergens for identifying, evaluating and studying allergen mimotopes as multiple copies of a single mimotope or various combinations on the same particle. The nanoparticle is extremely versatile and allows multivalent binding to IgEs specific to a variety of mimotopes, simulating allergen proteins. Nanoparticles can include various molecular ratios of components. For example, the nanoallergens can include about 0.1-40% mimotope-lipid conjugate and about 60-99.9% lipid. The mimotope-lipid conjugate includes a mimotope, a first linker, and lipid molecule. Nanoallergens can be used in in vitro and in vivo applications to identify a specific patient's sensitivity to a set of epitopes and predict a symptomatic clinical response, identify allergen epitopes through blind screening peptide sequences from allergen protein, and in a clinical application similar to a scratch test.Type: GrantFiled: December 18, 2020Date of Patent: May 2, 2023Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Peter Edward Deak, Tanyel Kiziltepe Bilgicer, Jared Francis Stefanick, Jonathan Darryl Ashley
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Publication number: 20220218839Abstract: A method of crosslinking a hetero-bifunctional photo crosslinking compound to an immunoglobulin having at least one heterocyclic photo reactive group and at least one non-photo reactive group where the non-photo reactive group is coupled to an effector molecule and the photo reactive group is coupled to the nucleotide binding site of an immunoglobulin. Alternatively, the photo crosslinker contains an orthogonal reactive group such as a thiol, which can be coupled to an effector molecule or functionalized ligand.Type: ApplicationFiled: September 2, 2021Publication date: July 14, 2022Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Nathan J. ALVES
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Patent number: 11116848Abstract: A method of crosslinking a hetero-bifunctional photo crosslinking compound to an immunoglobulin having at least one heterocyclic photo reactive group and at least one non-photo reactive group where the non-photo reactive group is coupled to an effector molecule and the photo reactive group is coupled to the nucleotide binding site of an immunoglobulin. Alternatively, the photo crosslinker contains an orthogonal reactive group such as a thiol, which can be coupled to an effector molecule or functionalized ligand.Type: GrantFiled: June 24, 2019Date of Patent: September 14, 2021Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Nathan J. Alves
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Publication number: 20210138089Abstract: Embodiments of the present disclosure provide a nanoparticle based platform, and nanoallergens for identifying, evaluating and studying allergen mimotopes as multiple copies of a single mimotope or various combinations on the same particle. The nanoparticle is extremely versatile and allows multivalent binding to IgEs specific to a variety of mimotopes, simulating allergen proteins. Nanoparticles can include various molecular ratios of components. For example, the nanoallergens can include about 0.1-40% mimotope-lipid conjugate and about 60-99.9% lipid. The mimotope-lipid conjugate includes a mimotope, a first linker, and lipid molecule. Nanoallergens can be used in in vitro and in vivo applications to identify a specific patient's sensitivity to a set of epitopes and predict a symptomatic clinical response, identify allergen epitopes through blind screening peptide sequences from allergen protein, and in a clinical application similar to a scratch test.Type: ApplicationFiled: December 18, 2020Publication date: May 13, 2021Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Peter Edward DEAK, Tanyel KIZILTEPE BILGICER, Jared Francis STEFANICK, Jonathan Darryl ASHLEY
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Publication number: 20210115157Abstract: The invention provides a strategy for site specific covalent modification of antibodies using a specialized targeting covalent heterobivalent ligand (cHBL), and corresponding design for a covalent heterobivalent inhibitor (cHBI) that can be used to prevent Immunoglobulin E (IgE) mediated allergic reactions triggered by drug molecules, according to one embodiment. These molecules contain four important components: (1) an IgE antigen binding site (ABS) ligand that can be a mimotope for the allergen protein, a small molecule, or a peptidomimetic, (2) an appropriate linker, which can be any flexible or rigid chemical linker, providing spacing between the ABS binder and the other moieties, (3) a nucleotide binding site (NBS) ligand, and (4) a reactive moiety to form a covalent link with an amino acid side chain of target IgE antibodies.Type: ApplicationFiled: December 18, 2020Publication date: April 22, 2021Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Peter Edward DEAK, Tanyel KIZILTEPE BILGICER, Michael William HANDLOGTEN, Jonathan Darryl ASHLEY
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Patent number: 10947320Abstract: The invention provides a strategy for site specific covalent modification of antibodies using a specialized targeting covalent heterobivalent ligand (cHBL), and corresponding design for a covalent heterobivalent inhibitor (cHBI) that can be used to prevent Immunoglobulin E (IgE) mediated allergic reactions triggered by drug molecules, according to one embodiment. These molecules contain four important components: (1) an IgE antigen binding site (ABS) ligand that can be a mimotope for the allergen protein, a small molecule, or a peptidomimetic, (2) an appropriate linker, which can be any flexible or rigid chemical linker, providing spacing between the ABS binder and the other moieties, (3) a nucleotide binding site (NBS) ligand, and (4) a reactive moiety to form a covalent link with an amino acid side chain of target IgE antibodies.Type: GrantFiled: December 19, 2016Date of Patent: March 16, 2021Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Peter Edward Deak, Tanyel Kiziltepe Bilgicer, Michael William Handlogten, Jonathan Darryl Ashley
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Patent number: 10874751Abstract: Embodiments of the present disclosure provide a nanoparticle based platform, and nanoallergens for identifying, evaluating and studying allergen mimotopes as multiple copies of a single mimotope or various combinations on the same particle. The nanoparticle is extremely versatile and allows multivalent binding to IgEs specific to a variety of mimotopes, simulating allergen proteins. Nanoparticles can include various molecular ratios of components. For example, the nanoallergens can include about 0.1-40% mimotope-lipid conjugate and about 60-99.9% lipid. The mimotope-lipid conjugate includes a mimotope, a first linker, and lipid molecule. Nanoallergens can be used in in vitro and in vivo applications to identify a specific patient's sensitivity to a set of epitopes and predict a symptomatic clinical response, identify allergen epitopes through blind screening peptide sequences from allergen protein, and in a clinical application similar to a scratch test.Type: GrantFiled: September 26, 2016Date of Patent: December 29, 2020Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Peter Edward Deak, Tanyel Kiziltepe Bilgicer, Jared Francis Stefanick, Jonathan Darryl Ashley
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Publication number: 20190375857Abstract: The invention provides a strategy for site specific covalent modification of antibodies using a specialized targeting covalent heterobivalent ligand (cHBL), and corresponding design for a covalent heterobivalent inhibitor (cHBI) that can be used to prevent Immunoglobulin E (IgE) mediated allergic reactions triggered by drug molecules, according to one embodiment. These molecules contain four important components: (1) an IgE antigen binding site (ABS) ligand that can be a mimotope for the allergen protein, a small molecule, or a peptidomimetic, (2) an appropriate linker, which can be any flexible or rigid chemical linker, providing spacing between the ABS binder and the other moieties, (3) a nucleotide binding site (NBS) ligand, and (4) a reactive moiety to form a covalent link with an amino acid side chain of target IgE antibodies.Type: ApplicationFiled: December 19, 2016Publication date: December 12, 2019Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Peter Edward DEAK, Tanyel KIZILTEPE BILGICER, Michael William HANDLOGTEN, Jonathan Darryl ASHLEY
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Publication number: 20190328896Abstract: A method of crosslinking a hetero-bifunctional photo crosslinking compound to an immunoglobulin having at least one heterocyclic photo reactive group and at least one non-photo reactive group where the non-photo reactive group is coupled to an effector molecule and the photo reactive group is coupled to the nucleotide binding site of an immunoglobulin. Alternatively, the photo crosslinker contains an orthogonal reactive group such as a thiol, which can be coupled to an effector molecule or functionalized ligand.Type: ApplicationFiled: June 24, 2019Publication date: October 31, 2019Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Nathan J. ALVES
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Patent number: 10342846Abstract: The invention provides pharmaceutical compositions and method of using the compositions, wherein the compositions comprise liposomes or micelles that contain one or more targeting peptides and/or anticancer drugs. In various embodiments, the components of the liposomes can include a) a phospholipid and optionally a lipid that is not a phospholipid; b) a pegylated lipid; c) a peptide-ethylene glycol (EG)-lipid conjugate wherein the peptide is a targeting ligand, and d) one or more drug-conjugated lipid, encapsulated drugs, or a combination thereof. The peptide-EG-lipid conjugate can be, for example, a compound of Formula (I) or Formula (II). The ethylene glycol (EG) segments of the peptide-EG-lipid conjugate can be, for example, EG6 to about EG36; and the EG segment can be conjugated to one or more lysine moieties.Type: GrantFiled: February 4, 2014Date of Patent: July 9, 2019Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Jonathan Ashley, Tanyel Kiziltepe Bilgicer, Jared Stefanick, Nathan J. Alves
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Publication number: 20180272008Abstract: Embodiments of the present disclosure provide a nanoparticle based platform, and nanoallergens for identifying, evaluating and studying allergen mimotopes as multiple copies of a single mimotope or various combinations on the same particle. The nanoparticle is extremely versatile and allows multivalent binding to IgEs specific to a variety of mimotopes, simulating allergen proteins. Nanoparticles can include various molecular ratios of components. For example, the nanoallergens can include about 0.1-40% mimotope-lipid conjugate and about 60-99.9% lipid. The mimotope-lipid conjugate includes a mimotope, a first linker, and lipid molecule. Nanoallergens can be used in in vitro and in vivo applications to identify a specific patient's sensitivity to a set of epitopes and predict a symptomatic clinical response, identify allergen epitopes through blind screening peptide sequences from allergen protein, and in a clinical application similar to a scratch test.Type: ApplicationFiled: September 26, 2016Publication date: September 27, 2018Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Peter DEAK, Tanyel KIZILTEPE BILGICER, Jared Francis STEFANICK, Jonathan Darryl ASHLEY
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Publication number: 20180263909Abstract: The disclosure provides pharmaceutical compositions and method of using the compositions, wherein the compositions comprise liposomes that contain two or more anticancer drugs. In various embodiments the components of the liposomes can include a) a phospholipid, b) a pegylated lipid, c) an aqueous core, and d) at least one covalently-linked drug-conjugated lipid, an encapsulated drug, or a combination thereof, wherein the drug of the lipid-drug conjugate, encapsulated drug, or both, are anticancer drugs.Type: ApplicationFiled: September 15, 2016Publication date: September 20, 2018Applicant: University Of Notre Dame du LacInventors: Zihni Basar BILGICER, Tanyel KIZILTEPE BILGICER, Jonathan Darryl ASHLEY
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Publication number: 20180177810Abstract: Embodiments provide systems, methods, and compositions for nanoparticle-based drug delivery to target cells or tissues. A drug delivery system may include a nanoparticle with a targeting component and a therapeutic component. The nanoparticle may have a predetermined number or valence of targeting molecules for multivalent interaction with a target cell or tissue. Binding of the targeting molecules to the target cell may result in receptor-mediated uptake of the nanoparticle by the target cell. The therapeutic component may be subsequently released within an endocytic vesicle of the target cell. Nanoparticle-based drug delivery systems as described herein may provide improved efficacy and/or reduced toxicity.Type: ApplicationFiled: January 23, 2018Publication date: June 28, 2018Applicant: University of Notre Dame du LacInventors: Zihni Basar BILGICER, Tanyel KIZILTEPE BILGICER, Jonathan Darryl ASHLEY, Jared Francis STEFANICK, Nathan J. ALVES, Michael W. HANDLOGTEN
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Patent number: 9872870Abstract: Embodiments provide systems, methods, and compositions for nanoparticle-based drug delivery to target cells or tissues. A drug delivery system may include a nanoparticle with a targeting component and a therapeutic component. The nanoparticle may have a predetermined number or valence of targeting molecules for multivalent interaction with a target cell or tissue. Binding of the targeting molecules to the target cell may result in receptor-mediated uptake of the nanoparticle by the target cell. The therapeutic component may be subsequently released within an endocytic vesicle of the target cell. Nanoparticle-based drug delivery systems as described herein may provide improved efficacy and/or reduced toxicity.Type: GrantFiled: November 5, 2012Date of Patent: January 23, 2018Assignee: University of Notre Dame du LacInventors: Zihni Basar Bilgicer, Tanyel Kiziltepe Bilgicer, Jonathan Darryl Ashley, Jared Stefanick, Nathan J. Alves, Michael W. Handlogten
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Publication number: 20170166607Abstract: Embodiments herein provide methods of purifying monoclonal and polyclonal anti-bodies (e.g., immunoglobulins) from biological fluids, such as cell lysates, cell supernatant and ascites fluids, using small molecule affinity chromatography. Various embodiments disclose a class of small molecules that selectively bind a nucleotide binding site that is inherent to all immunoglobulins, and in various embodiments, methods are disclosed that use one of these small molecules as a capture molecule in small molecule affinity chromatography. In some embodiments, the small molecule may be an indole, and in particular embodiments, the small molecule may be indole-3-butyric acid.Type: ApplicationFiled: February 17, 2017Publication date: June 15, 2017Applicant: UNIVERSITY OF NOTRE DAME DU LACInventors: Zihni Basar Bilgicer, Tanyel Kiziltepe Bilgicer, Nathan Joseph Alves, Jonathan Darryl Ashley, Michael William Handlogten
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Patent number: 9598460Abstract: Embodiments herein provide methods of purifying monoclonal and polyclonal antibodies (e.g., immunoglobulins) from biological fluids, such as cell lysates, cell supernatant and ascites fluids, using small molecule affinity chromatography. Various embodiments disclose a class of small molecules that selectively bind a nucleotide binding site that is inherent to all immunoglobulins, and in various embodiments, methods are disclosed that use one of these small molecules as a capture molecule in small molecule affinity chromatography. In some embodiments, the small molecule may be an indole, and in particular embodiments, the small molecule may be indole-3-butyric acid.Type: GrantFiled: January 18, 2012Date of Patent: March 21, 2017Assignee: UNIVERSITY OF NOTRE DAME DU LACInventors: Zihni Basar Bilgicer, Tanyel Kiziltepe Bilgicer, Nathan Joseph Alves, Jonathan Darryl Ashley, Michael William Handlogten
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Publication number: 20160038607Abstract: The invention provides pharmaceutical compositions and method of using the compositions, wherein the compositions comprise liposomes or micelles that contain one or more targeting peptides and/or anticancer drugs. In various embodiments, the components of the liposomes can include a) a phospholipid and optionally a lipid that is not a phospholipid; b) a pegylated lipid; c) a peptide-ethylene glycol (EG)-lipid conjugate wherein the peptide is a targeting ligand, and d) one or more drug-conjugated lipid, encapsulated drugs, or a combination thereof. The peptide-EG-lipid conjugate can be, for example, a compound of Formula (I) or Formula (II). The ethylene glycol (EG) segments of the peptide-EG-lipid conjugate can be, for example, EG6 to about EG36; and the EG segment can be conjugated to one or more lysine moieties.Type: ApplicationFiled: February 4, 2014Publication date: February 11, 2016Applicant: UNIVERSITY OF NOTRE DAME DU LACInventors: Zihni Basar BILGICER, Jonathan ASHLEY, Tanyel KIZILTEPE-BILGICER, Jared STEFANICK, Nathan J. ALVES
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Publication number: 20160022834Abstract: The invention provides for a method of crosslinking a hetero-bifunctional photo crosslinking compound to an immunoglobulin having at least one heterocyclic photo reactive group and at least one non-photo reactive group where the non-photo reactive group is coupled to an effector molecule and the photo reactive group is coupled to the nucleotide binding site of an immunoglobulin. Alternatively, the photo crosslinker contains an orthogonal reactive group such as a thiol, which can be coupled to an effector molecule or functionalized ligand.Type: ApplicationFiled: March 14, 2014Publication date: January 28, 2016Applicant: UNIVERSITY OF NOTRE DAME DU LACInventors: Zihni Basar Bilgicer, Nathan Alves