Neoantigen identification with pan-allele models

A method for identifying neoantigens that are likely to be presented by MHC alleles on a surface of tumor cells of a subject. Peptide sequences of the tumor neoantigens and of the MHC alleles are obtained by sequencing the tumor cells of the subject. The peptide sequences of the tumor neoantigens an...

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Bibliographische Detailangaben
Hauptverfasser:	YELENSKY, Roman, BULIK-SULLIVAN, Brendan, SKOBERNE, Mojca, BUSBY, Jennifer, BOUCHER, Thomas Francis
Format:	Patent
Sprache:	eng
Schlagworte:	BEER BIOCHEMISTRY CHEMISTRY COMBINATORIAL CHEMISTRY COMPOSITIONS OR TEST PAPERS THEREFOR CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL ORENZYMOLOGICAL PROCESSES ENZYMOLOGY INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIRCHEMICAL OR PHYSICAL PROPERTIES LIBRARIES, e.g. CHEMICAL LIBRARIES, IN SILICOLIBRARIES MEASURING MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEICACIDS OR MICROORGANISMS METALLURGY MICROBIOLOGY MUTATION OR GENETIC ENGINEERING ORGANIC CHEMISTRY PEPTIDES PHYSICS PROCESSES OF PREPARING SUCH COMPOSITIONS SPIRITS TESTING VINEGAR WINE
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Beschreibung
Zusammenfassung:	A method for identifying neoantigens that are likely to be presented by MHC alleles on a surface of tumor cells of a subject. Peptide sequences of the tumor neoantigens and of the MHC alleles are obtained by sequencing the tumor cells of the subject. The peptide sequences of the tumor neoantigens and of the MHC alleles are input into a machine-learned presentation model to generate presentation likelihoods for the tumor neoantigens, each presentation likelihood representing the likelihood that a neoantigen is presented by at least one of the MHC alleles on the surface of the tumor cells of the subject. A subset of the neoantigens is selected based on the presentation likelihoods.