PMC:7258756 / 36492-37447 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"547","span":{"begin":87,"end":92},"obj":"Gene"},{"id":"548","span":{"begin":241,"end":246},"obj":"Gene"},{"id":"549","span":{"begin":424,"end":429},"obj":"Gene"},{"id":"550","span":{"begin":4,"end":9},"obj":"Gene"},{"id":"551","span":{"begin":21,"end":29},"obj":"Species"}],"attributes":[{"id":"A547","pred":"tao:has_database_id","subj":"547","obj":"Gene:3458"},{"id":"A548","pred":"tao:has_database_id","subj":"548","obj":"Gene:3458"},{"id":"A549","pred":"tao:has_database_id","subj":"549","obj":"Gene:3458"},{"id":"A550","pred":"tao:has_database_id","subj":"550","obj":"Gene:43740568"},{"id":"A551","pred":"tao:has_database_id","subj":"551","obj":"Tax:694009"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T244","span":{"begin":10,"end":17},"obj":"Body_part"},{"id":"T245","span":{"begin":104,"end":108},"obj":"Body_part"},{"id":"T246","span":{"begin":278,"end":285},"obj":"Body_part"},{"id":"T247","span":{"begin":322,"end":326},"obj":"Body_part"},{"id":"T248","span":{"begin":345,"end":352},"obj":"Body_part"},{"id":"T249","span":{"begin":554,"end":558},"obj":"Body_part"},{"id":"T250","span":{"begin":751,"end":754},"obj":"Body_part"},{"id":"T251","span":{"begin":800,"end":803},"obj":"Body_part"}],"attributes":[{"id":"A244","pred":"fma_id","subj":"T244","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A245","pred":"fma_id","subj":"T245","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A246","pred":"fma_id","subj":"T246","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A247","pred":"fma_id","subj":"T247","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A248","pred":"fma_id","subj":"T248","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A249","pred":"fma_id","subj":"T249","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A250","pred":"fma_id","subj":"T250","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A251","pred":"fma_id","subj":"T251","obj":"http://purl.org/sig/ont/fma/fma84795"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T202","span":{"begin":21,"end":29},"obj":"Disease"},{"id":"T203","span":{"begin":21,"end":25},"obj":"Disease"}],"attributes":[{"id":"A202","pred":"mondo_id","subj":"T202","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A203","pred":"mondo_id","subj":"T203","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T297","span":{"begin":30,"end":33},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T298","span":{"begin":102,"end":108},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T299","span":{"begin":287,"end":288},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T300","span":{"begin":320,"end":326},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T301","span":{"begin":362,"end":363},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T302","span":{"begin":552,"end":558},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T303","span":{"begin":639,"end":641},"obj":"http://purl.obolibrary.org/obo/CLO_0050050"},{"id":"T304","span":{"begin":682,"end":684},"obj":"http://purl.obolibrary.org/obo/CLO_0008922"},{"id":"T305","span":{"begin":682,"end":684},"obj":"http://purl.obolibrary.org/obo/CLO_0050052"},{"id":"T306","span":{"begin":743,"end":744},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T307","span":{"begin":774,"end":775},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T308","span":{"begin":780,"end":781},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T160","span":{"begin":10,"end":17},"obj":"Chemical"},{"id":"T161","span":{"begin":278,"end":285},"obj":"Chemical"},{"id":"T162","span":{"begin":345,"end":352},"obj":"Chemical"},{"id":"T163","span":{"begin":682,"end":684},"obj":"Chemical"}],"attributes":[{"id":"A160","pred":"chebi_id","subj":"T160","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A161","pred":"chebi_id","subj":"T161","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A162","pred":"chebi_id","subj":"T162","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A163","pred":"chebi_id","subj":"T163","obj":"http://purl.obolibrary.org/obo/CHEBI_29387"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"LitCovid-sentences","denotations":[{"id":"T242","span":{"begin":0,"end":120},"obj":"Sentence"},{"id":"T243","span":{"begin":121,"end":286},"obj":"Sentence"},{"id":"T244","span":{"begin":287,"end":410},"obj":"Sentence"},{"id":"T245","span":{"begin":411,"end":541},"obj":"Sentence"},{"id":"T246","span":{"begin":542,"end":793},"obj":"Sentence"},{"id":"T247","span":{"begin":794,"end":955},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}

{"project":"2_test","denotations":[{"id":"32242873-26038429-47036576","span":{"begin":117,"end":119},"obj":"26038429"},{"id":"32242873-32022276-47036577","span":{"begin":302,"end":304},"obj":"32022276"},{"id":"T63478","span":{"begin":117,"end":119},"obj":"26038429"},{"id":"T36379","span":{"begin":302,"end":304},"obj":"32022276"}],"text":"The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26. The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein. A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score. Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common. Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes. These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design."}