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    Mathematical processes for determination of peptidase cleavage
    1.
    发明授权
    Mathematical processes for determination of peptidase cleavage 有权

    公开(公告)号：US11069427B2

    公开(公告)日：2021-07-20

    申请号：US14895748

    申请日：2014-06-09

    申请人： IOGENETICS, LLC

    发明人： Robert D. Bremel

    IPC分类号： G16B20/00 ,  G16B5/00 ,  G16B40/00 ,  G06N3/04 ,  G06N3/08

    摘要： This invention relates to the identification of peptidase cleavage sites in proteins and in particular to identification protease cleavage by the endopeptidases. The present invention utilizes a bioinformatic methodology for prediction of peptidase cleavage sites based on principal component analysis and based on training sets obtained by experimental protein cleavage. This invention is not limited to training sets derived from CSL approaches, nor to any other experimental determination of cleavage site.

    Identifying peptides having T-cell-exposed motifs with known frequency of occurrence in a reference database
    4.
    发明授权
    Identifying peptides having T-cell-exposed motifs with known frequency of occurrence in a reference database 有权

    公开(公告)号：US10755801B2

    公开(公告)日：2020-08-25

    申请号：US15325655

    申请日：2015-07-10

    申请人： IOGENETICS, LLC

    发明人： Robert D. Bremel ,  Jane Homan ,  Michael Imboden

    IPC分类号： G16B30/00 ,  G16B20/00 ,  G16B50/00 ,  G01N33/68

    摘要： The present invention provides methods and systems for identifying and classifying epitopes and use of that information to analyze proteins and peptides within proteins, especially potential epitopes, and to use the information to design synthetic peptides and proteins, analyze biopharmaceutical proteins, and diagnose autoimmune conditions. Peptides which are bound in MHC grooves comprise two sets of amino acids: those that face inwards into the groove and determine the binding affinity to the MHC molecule (the groove exposed motifs or GEM) and those which do not interact with the groove but rather are on the obverse side exposed outwardly to the T-cells (the T-cell exposed Motifs or TCEM). The present invention utilizes information related to the identity and physiochemical characteristics of the GEM and TCEM.

    PERSONALIZED ALLOGENEIC IMMUNOTHERAPY
    6.
    发明公开
    PERSONALIZED ALLOGENEIC IMMUNOTHERAPY 审中-公开

    公开(公告)号：US20240197878A1

    公开(公告)日：2024-06-20

    申请号：US18287715

    申请日：2022-04-20

    申请人： IOGENETICS, LLC

    发明人： Jane Homan ,  Robert D. Bremel

    IPC分类号： A61K39/00 ,  A61P35/00 ,  C12N15/10 ,  G16B15/30 ,  G16B20/20

    CPC分类号： A61K39/464401 ,  A61K39/4611 ,  A61P35/00 ,  C12N15/1055 ,  G16B15/30 ,  G16B20/20

    摘要： The present invention provides methods for treating cancer by T cell therapy comprising the steps of obtaining a biopsy from a subject affected by cancer, identifying mutated amino acids in the tumor and the T cell exposed amino acid motifs which contain the mutated amino acids, identifying a donor with matching alleles, generating an array of alternate peptides in which the T cell exposed motifs are maintained constant, but the other amino acids are substituted, selecting one or more peptides from the array of alternative peptides, each having a desired binding affinity to the MHC allele while maintaining the tumor specific T cell exposed motif, contacting antigen presenting cells with the selected alternative peptides so that the peptide is presented by the MHC of the antigen presenting cells, contacting the antigen presenting cells carrying the selected peptide with T cells harvested from the donor, and infusing the subject with stimulated T cells responding to the peptide of interest presented by the dendritic cell MHC.

    IMMUNE RECOGNITION MOTIFS
    9.
    发明申请
    IMMUNE RECOGNITION MOTIFS 审中-公开

    公开(公告)号：US20170161430A1

    公开(公告)日：2017-06-08

    申请号：US15325655

    申请日：2015-07-10

    申请人： IOGENETICS, LLC

    发明人： Robert D. Bremel ,  Jane Homan ,  Michael Imboden

    IPC分类号： G06F19/22 ,  G06F19/18 ,  G01N33/68 ,  G06F19/28

    CPC分类号： G16B30/00 ,  G01N33/6854 ,  G01N33/6878 ,  G01N2800/24 ,  G16B20/00 ,  G16B50/00

    摘要： The present invention provides methods and systems for identifying and classifying epitopes and use of that information to analyze proteins and peptides within proteins, especially potential epitopes, and to use the information to design synthetic peptides and proteins, analyze biopharmaceutical proteins, and diagnose autoimmune conditions. Peptides which are bound in MHC grooves comprise two sets of amino acids: those that face inwards into the groove and determine the binding affinity to the MHC molecule (the groove exposed motifs or GEM) and those which do not interact with the groove but rather are on the obverse side exposed outwardly to the T-cells (the T-cell exposed Motifs or TCEM). The present invention utilizes information related to the identity and physiochemical characteristics of the GEM and TCEM.

    FORMULATION OF PEPTIDE IMMUNOTHERAPIES
    10.
    发明公开
    FORMULATION OF PEPTIDE IMMUNOTHERAPIES 审中-公开

    公开(公告)号：US20240229143A1

    公开(公告)日：2024-07-11

    申请号：US18256243

    申请日：2021-12-07

    申请人： IOGENETICS, LLC

    发明人： Jane Homan ,  Robert D. Bremel ,  Hassan Benameur

    IPC分类号： C12Q1/6886 ,  A61K38/03 ,  A61K39/00

    CPC分类号： C12Q1/6886 ,  A61K38/03 ,  A61K39/0011 ,  C12Q2600/156

    摘要： This invention provides a method for maximizing the immune response to mutated tumor specific proteins, either by means of stimulation of dendritic cells or T cells in vitro followed by administration of these cells to a patient, or by means of administration of a neoantigen vaccine in which de novo peptides, or their encoding nucleic acids, have been designed to ensure an appropriate level of binding affinity to a particular cancer patient's MHC alleles. This invention further provides for modulating the immune response in an immunopathology