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PMC:7307149 / 15479-16539 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T99 61-64 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T100 345-348 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T101 384-387 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T102 448-451 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T103 461-464 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T104 478-481 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T105 503-506 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T106 516-519 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T107 533-536 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T108 875-878 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T69 305-313 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T70 569-577 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T71 967-975 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T161 65-66 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T162 67-68 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T163 208-209 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T164 452-453 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T165 465-466 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T166 507-508 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T167 520-521 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T168 807-809 http://purl.obolibrary.org/obo/CLO_0008933 denotes S5
T169 824-826 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T170 824-826 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T171 949-957 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T172 1000-1001 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T173 1042-1049 http://www.ebi.ac.uk/efo/EFO_0000876 denotes extreme

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T92 580-587 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T93 807-809 Chemical denotes S5 http://purl.obolibrary.org/obo/CHEBI_29386
T94 824-826 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T95 949-957 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
298 61-68 Gene denotes HLA-A/B Gene:3105
299 448-453 Gene denotes HLA-A Gene:3105
300 461-466 Gene denotes HLA-B Gene:3106
301 478-483 Gene denotes HLA-C Gene:3107
302 503-508 Gene denotes HLA-A Gene:3105
303 516-521 Gene denotes HLA-B Gene:3106
304 533-538 Gene denotes HLA-C Gene:3107
305 305-315 Species denotes SARS-CoV-2 Tax:2697049
306 569-579 Species denotes SARS-CoV-2 Tax:2697049
307 967-977 Species denotes SARS-CoV-2 Tax:2697049

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T86 243-398 Sentence denotes We sought to determine whether allele-specific variability in SARS-CoV-2 presentation extends to full HLA haplotypes and to whole individual HLA genotypes.
T87 399-744 Sentence denotes For six representative alleles with the highest (HLA-A*02:02, HLA-B*15:03, and HLA-C*12:03) and lowest (HLA-A*25:01, HLA-B*46:01, and HLA-C*01:02) predicted capacity for SARS-CoV-2 epitope presentation, these differences remain significant at the haplotype level, albeit with wide variability in presentation among different haplotypes (Fig. 6).
T88 745-827 Sentence denotes Haplotype-level data for all 145 alleles are included in Fig. S5 and Data File S2.
T89 828-1060 Sentence denotes We then identified 3,382 individuals with full HLA genotype data and noted wide variability in their capacity to present peptides from the SARS-CoV-2 proteome, albeit with a small minority of individuals at either extreme (Fig. S6).