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PMC:7258756 / 17871-18945 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
271 658-663 Gene denotes IFN-γ Gene:3458
272 875-880 Gene denotes IFN-γ Gene:3458
273 96-106 Species denotes SARS-CoV-2 Tax:2697049

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T94 41-45 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T95 157-168 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T149 96-104 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T150 96-100 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T123 39-45 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T124 142-143 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T125 757-759 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T126 782-784 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T127 782-784 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T128 994-995 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T90 157-168 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T91 157-162 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T92 163-168 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T93 782-784 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T94 897-899 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T95 1050-1057 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T19 842-857 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response
T20 902-924 http://purl.obolibrary.org/obo/GO_0006487 denotes N-linked glycosylation
T21 911-924 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T22 968-981 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T135 0-20 Sentence denotes Epitope predictions:
T136 21-194 Sentence denotes Thirty one linear B-cell epitopes were predicted by Bepipred in the Indian SARS-CoV-2, of which three were found to have a length of <6 amino acids and hence not considered.
T137 195-324 Sentence denotes Linear epitopes were also predicted using the ABCpred prediction tool, which predicted 47 epitopes based on the threshold of 0.8.
T138 325-403 Sentence denotes Regions common to both the prediction methods (n=17) were identified manually.
T139 404-589 Sentence denotes The 17 epitopes were screened for their antigenicity using the VaxiJen v2.0 tool (http://www.ddg-pharmfac.net/vaxijen/VaxiJen/VaxiJen.html), and nine of these epitopes were shortlisted.
T140 590-720 Sentence denotes These epitopes were further screened for their ability to elicit an IFN-γ response, which was predicted using the IFNepitope tool.
T141 721-901 Sentence denotes Finally, five epitopes, four in the S1 domain and one in the S2 domain, were predicted, which could possibly generate an immune response and suppress the IFN-γ response (Table II).
T142 902-1074 Sentence denotes N-linked glycosylation site prediction revealed that two putative glycosylation sites (with a low value for jury agreement) were present within the epitope stretch 328-344.