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1. 发明申请

WO2020234188A1 METHOD AND SYSTEM FOR BINDING AFFINITY PREDICTION AND METHOD OF GENERATING A CANDIDATE PROTEIN-BINDING PEPTIDE 审中-公开
公开(公告)号：WO2020234188A1
公开(公告)日：2020-11-26
申请号：PCT/EP2020/063704
申请日：2020-05-15
申请人： NEC ONCOIMMUNITY AS
发明人： ROSE, Chris , EIDSAA, Maruis , STRATFORD, Richard , CLANCY, Trevor
IPC分类号： G16B15/30 , G16B40/20
摘要： According to a first aspect of the present invention there is provided a computer-implemented method of predicting a binding affinity value of a query binder molecule to a query target molecule, the query binder molecule having a first amino acid sequence and the query target molecule having a second amino acid sequence, the method comprising: encoding the first and second amino acid sequences together as a plurality of data elements to generate an encoded pair of amino acids, each data element of the encoded pair representing which amino acids from the first and second amino acid sequences are paired at a respective contact point between the first amino acid sequence and the second amino acid sequence to form a contact point pair, wherein a contact point pair is a pairing of amino acids from a binder molecule and a target molecule which are proximal to one another to influence binding; and, applying a machine learning or statistical model to the encoded pair of amino acids to predict a binding affinity value, wherein the machine learning model or statistical model is trained by: accessing, with at least one processor, a reference data store of reference binder-target pairs comprising respective paired reference binder sequences and reference target sequences, each reference binder-target pair having an associated measured binding value; and, encoding each reference binder-target pair as a plurality of data elements, each data element of the encoded reference binder-target pair representing which amino acids from the respective paired reference binder sequences and reference target sequences are paired at a respective contact point to form a contact point pair, such that the predicted binding affinity value is representative of a contribution to binding of each contact point pair of the query binder molecule and the query target molecule.

2. 发明申请

WO2021214071A1 METHOD AND SYSTEM FOR IDENTIFYING ONE OR MORE CANDIDATE REGIONS OF ONE OR MORE SOURCE PROTEINS THAT ARE PREDICTED TO INSTIGATE AN IMMUNOGENIC RESPONSE, AND METHOD FOR CREATING A VACCINE 审中-公开
公开(公告)号：WO2021214071A1
公开(公告)日：2021-10-28
申请号：PCT/EP2021/060259
申请日：2021-04-20
申请人： NEC ONCOIMMUNITY AS
发明人： SIMOVSKI, Boris , MOLINÉ, Clément , STRATFORD, Richard , CLANCY, Trevor
IPC分类号： G16B15/30 , A61K39/00 , G16B30/00 , A61K39/12 , A61P31/14 , C12N7/00 , G16H50/50
摘要： A computer-implemented method of identifying one or more candidate regions of one or more source proteins that are predicted to instigate an adaptive immunogenic response across a plurality of human leukocyte antigen, HLA, types, wherein the one or more source proteins has an amino acid sequence is disclosed. The method comprises (a) accessing the amino acid sequence of the one or more source proteins; (b) accessing a set of HLA types; (c) predicting an immunogenic potential of a plurality of candidate epitopes within the amino acid sequence, for each of the set of HLA types; (d) dividing the amino acid sequence into a plurality of amino acid sub-sequences; (e) for each of the plurality of amino acid sub-sequences, generating a region metric that is indicative of a predicted ability of the amino acid sub-sequence to instigate an immunogenic response across the set of HLA types, wherein the region metrics are based on the predicted immunogenic potentials of the plurality of candidate epitopes, for each of the set of HLA types; and (f) applying a statistical model to identify whether any of the generated region metrics are statistically significant, whereby an amino acid sub-sequence identified as having a statistically significant region metric corresponds to a candidate region of the amino acid sequence that is predicted to instigate an immunogenic response across at least a subset of the set of HLA types. A corresponding system is also disclosed, as well as a method for creating a vaccine.

3. 发明申请

WO2020070307A1 METHOD AND SYSTEM FOR BINDING AFFINITY PREDICTION AND METHOD OF GENERATING A CANDIDATE PROTEIN-BINDING PEPTIDE 审中-公开
公开(公告)号：WO2020070307A1
公开(公告)日：2020-04-09
申请号：PCT/EP2019/076954
申请日：2019-10-04
申请人： NEC ONCOIMMUNITY AS
发明人： EIDSAA, Marius , STRATFORD, Richard , CLANCY, Trevor
IPC分类号： G16B20/30
摘要： In a first aspect of the present disclosure, there is provided a computer-implemented method of predicting a binding affinity of a query binder molecule to a query target molecule, the query binder molecule having a first amino acid sequence and the query target molecule having a second amino acid sequence, the method comprising: computing, with the at least one processor, the binding affinity for the query binder molecule to the query target molecule as a weighted combination of reference binding values of reference binder-target subsequence pairs, wherein weights of the weighted combination are based on similarity scores.

4. 发明申请

WO2021214081A2 SARS-COV-2 VACCINES 审中-公开
公开(公告)号：WO2021214081A2
公开(公告)日：2021-10-28
申请号：PCT/EP2021/060272
申请日：2021-04-20
申请人： NEC ONCOIMMUNITY AS , NEC LABORATORIES EUROPE GMBH
发明人： STRATFORD, Richard , CLANCY, Trevor , MOLINÉ, Clément , SIMOVSKI, Boris , MALONE, Brandon , CHENG, Jun
IPC分类号： A61K39/12 , C12N2770/20034
摘要： The present invention relates to a coronavirus vaccine composition, comprising one or more epitopes suitable for stimulating a broad adaptive immune response across a plurality of human leukocyte antigen (HLA) populations, for either MHC Class I and/or MHC Class II immunogenicity. The selection of such epitopes is made possible by the generation of predictive data by an artificial intelligence (AI)-driven platform, through the analysis of large scale epitope mapping of the SARS-CoV-2 proteome and epitope scoring based upon predicted immunogenicity, followed by robust statistical analysis and Monte Carlo-based simulation. The vaccine compositions of the present invention are suitable for use in the therapeutic or prophylactic treatment of SARS-CoV-2 infections. The invention also describes methods for using said compositions.

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