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PMC:7228307 / 29487-30608 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
524 1084-1089 Gene denotes CD357 Gene:8784
525 921-925 Gene denotes FcγR Gene:2213
526 883-887 Gene denotes FcγR Gene:2213
527 744-748 Gene denotes FcγR Gene:2213
528 373-377 Gene denotes FcγR Gene:2213
529 105-109 Gene denotes FcγR Gene:2213
530 0-4 Gene denotes FcγR Gene:2213
531 52-64 Species denotes participants Tax:9606

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T290 16-21 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T291 123-126 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T292 165-177 Body_part denotes cell surface http://purl.org/sig/ont/fma/fma67653
T293 165-169 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T294 190-194 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T295 309-313 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T296 416-420 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T297 522-526 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T298 584-588 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T299 709-713 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T300 761-766 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T301 784-793 Body_part denotes monocytes http://purl.org/sig/ont/fma/fma62864
T302 811-815 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T303 830-838 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T304 899-904 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T53 72-75 Disease denotes MOA http://purl.obolibrary.org/obo/MONDO_0016702

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T563 0-2 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T564 16-21 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T565 105-107 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T566 165-169 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T567 181-182 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T568 190-194 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T569 234-236 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T570 259-261 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T571 262-264 http://purl.obolibrary.org/obo/CLO_0008882 denotes Rs
T572 300-301 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T573 309-313 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T574 373-375 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T575 416-420 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T576 497-498 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T577 522-526 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T578 582-588 http://purl.obolibrary.org/obo/CL_0000084 denotes T‐cell
T579 617-620 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T580 617-620 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T581 636-639 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T582 636-639 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T583 707-713 http://purl.obolibrary.org/obo/CL_0000084 denotes T‐cell
T584 720-723 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T585 720-723 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T586 735-743 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T587 744-746 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T588 761-766 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T589 784-793 http://purl.obolibrary.org/obo/CL_0000576 denotes monocytes
T590 809-815 http://purl.obolibrary.org/obo/CL_0000084 denotes T‐cell
T591 869-879 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation
T592 883-885 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T593 899-904 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T594 921-923 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T159 131-140 Chemical denotes molecules http://purl.obolibrary.org/obo/CHEBI_25367
T160 661-669 Chemical denotes mitogens http://purl.obolibrary.org/obo/CHEBI_52290

LitCovid-sample-PD-IDO

Id Subject Object Predicate Lexical cue
T174 16-21 http://purl.obolibrary.org/obo/CL_0000000 denotes cells
T175 165-169 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T176 190-194 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T177 309-313 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T178 416-420 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T179 522-526 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T180 584-588 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T181 709-713 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T182 761-766 http://purl.obolibrary.org/obo/CL_0000000 denotes cells
T183 811-815 http://purl.obolibrary.org/obo/CL_0000000 denotes cell
T184 899-904 http://purl.obolibrary.org/obo/CL_0000000 denotes cells

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
524 1084-1089 Gene denotes CD357 Gene:8784
525 921-925 Gene denotes FcγR Gene:2213
526 883-887 Gene denotes FcγR Gene:2213
527 744-748 Gene denotes FcγR Gene:2213
528 373-377 Gene denotes FcγR Gene:2213
529 105-109 Gene denotes FcγR Gene:2213
531 52-64 Species denotes participants Tax:9606

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T167 0-101 Sentence denotes FcγR‐expressing cells can be critical, but passive, participants in the MOA of some mAbs (Figure 1e).
T168 102-314 Sentence denotes In FcγR scaffolding, IgG mAb molecules that have opsonized the cell surface of a target cell are additionally cross‐linked by their Fc portions engaging the FcγRs that are arrayed on the surface of a second cell.
T169 315-527 Sentence denotes This “super‐cross‐linking” of the target‐bound mAb by the FcγR lattice or “scaffold” on the adjacent cell greatly exceeds the target cross‐linking by the mAb alone, thereby inducing a response in the target cell.
T170 528-1121 Sentence denotes Scaffolding was originally identified as the basis of T‐cell mitogenesis induced by anti‐CD3 mAb.57, 58 The CD3 mAbs alone were poor mitogens but the “super‐cross‐linking” of the T‐cell‐bound CD3 mAb by the membrane FcγR on adjacent cells, particularly by monocytes, induced rapid T‐cell expansion and cytokine secretion but did not require activation of FcγR‐expressing cells.57 Regrettably, FcγR scaffolding came to prominence and clinical relevance because of its causal role in the catastrophic adverse events resulting from the administration of anti‐CD357 and anti‐CD28 (TGN1412)59 mAbs.

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T313 1084-1089 Protein denotes CD357 https://www.uniprot.org/uniprot/Q9Y5U5|https://www.uniprot.org/uniprot/Q9NYJ9|https://www.uniprot.org/uniprot/Q9JKR3|https://www.uniprot.org/uniprot/Q9JKR2|https://www.uniprot.org/uniprot/Q9JKR1|https://www.uniprot.org/uniprot/Q5U0I4|https://www.uniprot.org/uniprot/O95851|https://www.uniprot.org/uniprot/O35714|https://www.uniprot.org/uniprot/B1AME1
T322 1099-1103 Protein denotes CD28 https://www.uniprot.org/uniprot/Q9BYV0|https://www.uniprot.org/uniprot/Q8WXJ2|https://www.uniprot.org/uniprot/Q8NI56|https://www.uniprot.org/uniprot/Q8NI55|https://www.uniprot.org/uniprot/Q8NI54|https://www.uniprot.org/uniprot/Q70WG0|https://www.uniprot.org/uniprot/Q6GSH7|https://www.uniprot.org/uniprot/Q52M23|https://www.uniprot.org/uniprot/Q28071|https://www.uniprot.org/uniprot/Q13964|https://www.uniprot.org/uniprot/P42069|https://www.uniprot.org/uniprot/P31042|https://www.uniprot.org/uniprot/P31041|https://www.uniprot.org/uniprot/P10747|https://www.uniprot.org/uniprot/O02757|https://www.uniprot.org/uniprot/A8KAC1

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T289 16-21 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T290 123-126 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T291 165-177 Body_part denotes cell surface http://purl.org/sig/ont/fma/fma67653
T292 165-169 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T293 190-194 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T294 309-313 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T295 416-420 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T296 522-526 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T297 584-588 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T298 709-713 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T299 761-766 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T300 784-793 Body_part denotes monocytes http://purl.org/sig/ont/fma/fma62864
T301 811-815 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T302 830-838 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T303 899-904 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646

LitCovid-sample-PD-GO-BP-0

Id Subject Object Predicate Lexical cue
T86 811-825 http://purl.obolibrary.org/obo/GO_0016049 denotes cell expansion
T87 830-848 http://purl.obolibrary.org/obo/GO_0050663 denotes cytokine secretion
T88 839-848 http://purl.obolibrary.org/obo/GO_0046903 denotes secretion

LitCovid-sample-GO-BP

Id Subject Object Predicate Lexical cue
T88 811-825 http://purl.obolibrary.org/obo/GO_0016049 denotes cell expansion
T89 830-848 http://purl.obolibrary.org/obo/GO_0001816 denotes cytokine secretion
T90 839-848 http://purl.obolibrary.org/obo/GO_0046903 denotes secretion

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T88 811-825 http://purl.obolibrary.org/obo/GO_0016049 denotes cell expansion
T89 830-848 http://purl.obolibrary.org/obo/GO_0001816 denotes cytokine secretion
T90 839-848 http://purl.obolibrary.org/obo/GO_0046903 denotes secretion

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T167 0-101 Sentence denotes FcγR‐expressing cells can be critical, but passive, participants in the MOA of some mAbs (Figure 1e).
T168 102-314 Sentence denotes In FcγR scaffolding, IgG mAb molecules that have opsonized the cell surface of a target cell are additionally cross‐linked by their Fc portions engaging the FcγRs that are arrayed on the surface of a second cell.
T169 315-527 Sentence denotes This “super‐cross‐linking” of the target‐bound mAb by the FcγR lattice or “scaffold” on the adjacent cell greatly exceeds the target cross‐linking by the mAb alone, thereby inducing a response in the target cell.
T170 528-1121 Sentence denotes Scaffolding was originally identified as the basis of T‐cell mitogenesis induced by anti‐CD3 mAb.57, 58 The CD3 mAbs alone were poor mitogens but the “super‐cross‐linking” of the T‐cell‐bound CD3 mAb by the membrane FcγR on adjacent cells, particularly by monocytes, induced rapid T‐cell expansion and cytokine secretion but did not require activation of FcγR‐expressing cells.57 Regrettably, FcγR scaffolding came to prominence and clinical relevance because of its causal role in the catastrophic adverse events resulting from the administration of anti‐CD357 and anti‐CD28 (TGN1412)59 mAbs.