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PMC:7307149 / 10153-11401 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T61 107-110 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079
T62 210-213 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T63 408-411 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T64 421-424 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T65 438-441 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T66 535-538 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T67 781-784 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T68 913-916 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T69 1080-1083 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T57 296-304 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T58 626-634 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T59 1042-1050 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T103 53-61 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T104 214-215 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T105 218-219 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T106 376-384 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T107 412-413 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T108 425-426 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T109 487-495 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T110 637-645 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T111 658-659 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T112 731-736 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T113 785-786 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T114 872-879 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T115 1113-1114 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T116 1228-1232 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T117 1244-1246 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T118 1244-1246 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T52 53-61 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T53 119-126 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T54 251-253 Chemical denotes S3 http://purl.obolibrary.org/obo/CHEBI_29388
T55 376-384 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T56 487-495 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T57 637-645 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T58 872-879 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T59 1244-1246 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
220 107-126 Gene denotes MHC class I antigen Gene:100507703
221 210-227 Gene denotes HLA-A, -B, and -C Gene:3105
222 408-413 Gene denotes HLA-A Gene:3105
223 421-426 Gene denotes HLA-B Gene:3106
224 781-786 Gene denotes HLA-B Gene:3106
225 438-443 Gene denotes HLA-C Gene:3107
226 296-306 Species denotes SARS-CoV-2 Tax:2697049
227 626-636 Species denotes SARS-CoV-2 Tax:2697049
228 731-736 Species denotes human Tax:9606
229 737-750 Species denotes coronaviruses Tax:11118
230 1042-1052 Species denotes SARS-CoV-2 Tax:2697049
231 1181-1192 Species denotes coronavirus Tax:11118

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T15 107-110 http://purl.obolibrary.org/obo/GO_0046776 denotes MHC
T16 119-137 http://purl.obolibrary.org/obo/GO_0019882 denotes antigen processing
T17 1080-1083 http://purl.obolibrary.org/obo/GO_0046776 denotes MHC

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T2 117-126 GlycoEpitope denotes I antigen http://www.glycoepitope.jp/epitopes/EP0138

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T62 256-385 Sentence denotes As described above, we demonstrated the SARS-CoV-2-specific distribution of per-allele presentation for these conserved peptides.
T63 386-496 Sentence denotes We found that alleles HLA-A*02:02, HLA-B*15:03, and HLA-C*12:03 were the top presenters of conserved peptides.
T64 497-751 Sentence denotes Conversely, we note that 56 different HLA alleles demonstrated no appreciable binding affinity (<500 nM) to any of the conserved SARS-CoV-2 peptides, suggesting a concomitant lack of potential for cross-protective immunity from other human coronaviruses.
T65 752-817 Sentence denotes We note, in particular, that HLA-B*46:01 was among these alleles.
T66 818-962 Sentence denotes We note also that the putative capacity for conserved peptide presentation is unrelated to the HLA allelic frequency in the population (Fig. 3).
T67 963-1248 Sentence denotes Moreover, we see no appreciable global correlation between conservation of the SARS-CoV-2 proteome and its predicted MHC binding affinity, suggesting a lack of selective pressure for or against the capacity to present coronavirus epitopes (P = 0.27 [Fisher’s exact test]; see Fig. S2).