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PMC:7324763 / 27869-29527 JSONTXT

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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T556 115-123 SP_10 denotes SARS-CoV
T557 130-138 SP_9 denotes MERS-CoV
T558 139-148 GO:0006260 denotes replicate
T559 363-372 UBERON:0002048 denotes pulmonary
T560 373-384 GO:0006260 denotes replication
T561 388-396 SP_10 denotes SARS-CoV
T562 483-495 UBERON:0005169 denotes interstitial
T563 517-525 UBERON:0003215 denotes alveolar
T564 590-598 GO:0051716 denotes cellular
T565 599-605 UBERON:0002405;GO:0006955 denotes immune
T566 606-614 GO:0006955 denotes response
T567 635-640 PR:000000134 denotes TNF-α
T568 645-649 PR:000001393 denotes IL-6
T569 667-683 PR:000000017 denotes interferon gamma
T570 709-717 CL:0000576 denotes monocyte
T571 743-746 PR:000001401 denotes MCP
T572 751-761 CL:0000235 denotes macrophage
T573 784-787 PR:000010911 denotes MIP
T574 793-799 PR:000002094 denotes RANTES
T575 841-847 UBERON:0001005;CL:0002368 denotes airway
T576 848-858 CL:0002368;UBERON:0000483 denotes epithelial
T577 859-864 CL:0002368 denotes cells
T578 866-874 UBERON:0003215;CL:0000583 denotes alveolar
T579 875-886 CL:0000583 denotes macrophages
T580 902-923 CL:0000860 denotes inflammatory monocyte
T581 924-935 CL:0000235 denotes macrophages
T582 940-951 CL:0000775 denotes neutrophils
T583 995-1003 UBERON:0003215;CL:0000583 denotes alveolar
T584 1004-1015 CL:0000583 denotes macrophages
T585 1027-1035 SP_10 denotes SARS-CoV
T586 1042-1050 SP_9 denotes MERS-CoV
T587 1168-1174 GO:0045087 denotes innate
T588 1175-1181 GO:0045087;UBERON:0002405 denotes immune
T589 1182-1190 GO:0045087 denotes response
T590 1217-1229 CL:0002629 denotes inflammatory
T591 1230-1238 CL:0000860 denotes monocyte
T592 1239-1249 CL:0000235 denotes macrophage
T593 1269-1277 SP_7 denotes COVID-19
T594 1319-1323 UBERON:0002048 denotes lung
T595 1340-1351 CL:0000235 denotes macrophages
T596 1387-1409 UBERON:0002031;BV_4 denotes bronchoalveolar lavage
T597 1410-1415 BV_4;UBERON:0006314 denotes fluid
T598 1468-1476 UBERON:0003215;CL:0000583 denotes alveolar
T599 1477-1488 CL:0000583 denotes macrophages
T600 1490-1500 CHEBI:35366;CHEBI:35366;PR:000025846 denotes Fatty Acid
T601 1501-1516 PR:000025846 denotes Binding Protein
T602 1615-1619 PR:000007437 denotes FCN1
T603 1623-1631 CL:0000576 denotes monocyte
T604 1640-1651 CL:0000235 denotes macrophages
T4501 115-123 SP_10 denotes SARS-CoV
T87796 130-138 SP_9 denotes MERS-CoV
T58320 139-148 GO:0006260 denotes replicate
T66223 363-372 UBERON:0002048 denotes pulmonary
T29179 373-384 GO:0006260 denotes replication
T22056 388-396 SP_10 denotes SARS-CoV
T42716 483-495 UBERON:0005169 denotes interstitial
T55066 517-525 UBERON:0003215 denotes alveolar
T32520 590-598 GO:0051716 denotes cellular
T11426 599-605 UBERON:0002405;GO:0006955 denotes immune
T34604 606-614 GO:0006955 denotes response
T51740 635-640 PR:000000134 denotes TNF-α
T41712 645-649 PR:000001393 denotes IL-6
T62062 667-683 PR:000000017 denotes interferon gamma
T60798 709-717 CL:0000576 denotes monocyte
T94024 743-746 PR:000001401 denotes MCP
T41267 751-761 CL:0000235 denotes macrophage
T51290 784-787 PR:000010911 denotes MIP
T50668 793-799 PR:000002094 denotes RANTES
T95249 841-847 UBERON:0001005;CL:0002368 denotes airway
T83477 848-858 CL:0002368;UBERON:0000483 denotes epithelial
T91732 859-864 CL:0002368 denotes cells
T44504 866-874 UBERON:0003215;CL:0000583 denotes alveolar
T37605 875-886 CL:0000583 denotes macrophages
T79350 902-923 CL:0000860 denotes inflammatory monocyte
T83306 924-935 CL:0000235 denotes macrophages
T54103 940-951 CL:0000775 denotes neutrophils
T64290 995-1003 UBERON:0003215;CL:0000583 denotes alveolar
T37346 1004-1015 CL:0000583 denotes macrophages
T74570 1027-1035 SP_10 denotes SARS-CoV
T49916 1042-1050 SP_9 denotes MERS-CoV
T39759 1168-1174 GO:0045087 denotes innate
T87515 1175-1181 GO:0045087;UBERON:0002405 denotes immune
T36530 1182-1190 GO:0045087 denotes response
T62177 1217-1229 CL:0002629 denotes inflammatory
T49183 1230-1238 CL:0000860 denotes monocyte
T21024 1239-1249 CL:0000235 denotes macrophage
T17611 1269-1277 SP_7 denotes COVID-19
T98100 1319-1323 UBERON:0002048 denotes lung
T60120 1340-1351 CL:0000235 denotes macrophages
T91382 1387-1409 UBERON:0002031;BV_4 denotes bronchoalveolar lavage
T64394 1410-1415 BV_4;UBERON:0006314 denotes fluid
T98705 1468-1476 UBERON:0003215;CL:0000583 denotes alveolar
T58851 1477-1488 CL:0000583 denotes macrophages
T91532 1490-1500 CHEBI:35366;CHEBI:35366;PR:000025846 denotes Fatty Acid
T51519 1501-1516 PR:000025846 denotes Binding Protein
T2059 1615-1619 PR:000007437 denotes FCN1
T33374 1623-1631 CL:0000576 denotes monocyte
T5993 1640-1651 CL:0000235 denotes macrophages

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T338 277-286 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T339 287-297 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981
T340 310-315 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T341 468-481 Body_part denotes bronchiolitis http://purl.org/sig/ont/fma/fma76497
T342 517-525 Body_part denotes alveolar http://purl.org/sig/ont/fma/fma264783
T343 624-633 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T344 645-647 Body_part denotes IL http://purl.org/sig/ont/fma/fma86578
T345 655-665 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981
T346 692-699 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T347 709-717 Body_part denotes monocyte http://purl.org/sig/ont/fma/fma62864
T348 734-741 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T349 751-761 Body_part denotes macrophage http://purl.org/sig/ont/fma/fma63261
T350 775-782 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T351 848-864 Body_part denotes epithelial cells http://purl.org/sig/ont/fma/fma66768
T352 859-864 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T353 866-886 Body_part denotes alveolar macrophages http://purl.org/sig/ont/fma/fma83023
T354 915-923 Body_part denotes monocyte http://purl.org/sig/ont/fma/fma62864
T355 924-935 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T356 940-951 Body_part denotes neutrophils http://purl.org/sig/ont/fma/fma62860
T357 995-1015 Body_part denotes alveolar macrophages http://purl.org/sig/ont/fma/fma83023
T358 1088-1096 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T359 1230-1238 Body_part denotes monocyte http://purl.org/sig/ont/fma/fma62864
T360 1239-1249 Body_part denotes macrophage http://purl.org/sig/ont/fma/fma63261
T361 1319-1323 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T362 1340-1351 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T363 1367-1370 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T364 1468-1488 Body_part denotes alveolar macrophages http://purl.org/sig/ont/fma/fma83023
T365 1490-1500 Body_part denotes Fatty Acid http://purl.org/sig/ont/fma/fma82738
T366 1509-1516 Body_part denotes Protein http://purl.org/sig/ont/fma/fma67257
T367 1623-1631 Body_part denotes monocyte http://purl.org/sig/ont/fma/fma62864
T368 1640-1651 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T33 1319-1323 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T225 90-102 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T226 115-123 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T227 115-119 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T228 173-182 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T229 341-350 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T230 388-396 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T231 388-392 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T232 468-481 Disease denotes bronchiolitis http://purl.obolibrary.org/obo/MONDO_0002465
T233 496-507 Disease denotes pneumonitis http://purl.obolibrary.org/obo/MONDO_0043905
T234 547-555 Disease denotes scarring http://purl.obolibrary.org/obo/MONDO_0005594
T235 1027-1035 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T236 1027-1031 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T237 1269-1277 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T238 1554-1558 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T394 310-315 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T395 339-340 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T396 468-481 http://purl.obolibrary.org/obo/UBERON_0002186 denotes bronchiolitis
T397 579-580 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T398 667-683 http://purl.obolibrary.org/obo/PR_000000017 denotes interferon gamma
T399 709-717 http://purl.obolibrary.org/obo/CL_0000576 denotes monocyte
T400 841-847 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T401 848-858 http://purl.obolibrary.org/obo/CL_0000066 denotes epithelial
T402 859-864 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T403 915-923 http://purl.obolibrary.org/obo/CL_0000576 denotes monocyte
T404 1230-1238 http://purl.obolibrary.org/obo/CL_0000576 denotes monocyte
T405 1319-1323 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T406 1319-1323 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T407 1623-1631 http://purl.obolibrary.org/obo/CL_0000576 denotes monocyte

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T52 645-647 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T54 667-677 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T55 678-683 Chemical denotes gamma http://purl.obolibrary.org/obo/CHEBI_30212
T56 692-699 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T57 701-703 Chemical denotes IP http://purl.obolibrary.org/obo/CHEBI_74076
T58 734-741 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T59 743-746 Chemical denotes MCP http://purl.obolibrary.org/obo/CHEBI_132592|http://purl.obolibrary.org/obo/CHEBI_50099
T61 775-782 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T62 1088-1096 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T63 1117-1127 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T64 1496-1500 Chemical denotes Acid http://purl.obolibrary.org/obo/CHEBI_37527
T65 1509-1516 Chemical denotes Protein http://purl.obolibrary.org/obo/CHEBI_16541

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
858 635-640 Gene denotes TNF-α Gene:7124
859 645-649 Gene denotes IL-6 Gene:3569
860 709-749 Gene denotes monocyte chemoattractant protein (MCP)-1 Gene:6347
861 751-791 Gene denotes macrophage inflammatory protein (MIP)-1a Gene:6348
862 793-799 Gene denotes RANTES Gene:6352
863 1490-1516 Gene denotes Fatty Acid Binding Protein Gene:2806
864 1518-1524 Gene denotes FABP)4 Gene:2167
865 1615-1619 Gene denotes FCN1 Gene:2219
866 115-123 Species denotes SARS-CoV Tax:694009
867 130-138 Species denotes MERS-CoV Tax:1335626
868 388-396 Species denotes SARS-CoV Tax:694009
869 1027-1035 Species denotes SARS-CoV Tax:694009
870 1042-1050 Species denotes MERS-CoV Tax:1335626
871 1278-1286 Species denotes patients Tax:9606
872 1417-1425 Species denotes Patients Tax:9606
873 1533-1541 Species denotes patients Tax:9606
874 90-102 Disease denotes inflammation MESH:D007249
875 173-182 Disease denotes infection MESH:D007239
876 301-309 Disease denotes infected MESH:D007239
877 341-350 Disease denotes pneumonia MESH:D011014
878 468-481 Disease denotes bronchiolitis MESH:D001988
879 496-507 Disease denotes pneumonitis MESH:D011014
880 517-532 Disease denotes alveolar damage MESH:D055370
881 832-840 Disease denotes infected MESH:D007239
882 1269-1277 Disease denotes COVID-19 MESH:C000657245
883 1554-1558 Disease denotes ARDS MESH:D012128

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T44 341-350 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T45 468-481 Phenotype denotes bronchiolitis http://purl.obolibrary.org/obo/HP_0011950
T46 483-507 Phenotype denotes interstitial pneumonitis http://purl.obolibrary.org/obo/HP_0006515
T47 509-532 Phenotype denotes diffuse alveolar damage http://purl.obolibrary.org/obo/HP_0033006
T48 547-555 Phenotype denotes scarring http://purl.obolibrary.org/obo/HP_0100699
T49 1319-1336 Phenotype denotes lung infiltration http://purl.obolibrary.org/obo/HP_0002113

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T89 90-102 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation
T90 590-614 http://purl.obolibrary.org/obo/GO_0002456 denotes cellular immune response
T91 590-614 http://purl.obolibrary.org/obo/GO_0002449 denotes cellular immune response
T92 590-614 http://purl.obolibrary.org/obo/GO_0002443 denotes cellular immune response
T93 599-614 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response
T94 1168-1190 http://purl.obolibrary.org/obo/GO_0045087 denotes innate immune response
T95 1175-1190 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response

MyTest

Id Subject Object Predicate Lexical cue
32655581-15602737-34771711 104-107 15602737 denotes 138
32655581-19906920-34771712 557-560 19906920 denotes 120
32655581-28466096-34771713 1017-1019 28466096 denotes 19
32655581-32479746-34771714 1021-1024 32479746 denotes 142
32655581-28466096-34771715 1261-1263 28466096 denotes 19
32655581-32398875-34771716 1653-1656 32398875 denotes 128

TEST0

Id Subject Object Predicate Lexical cue
32655581-104-111-3171284 104-107 ["15602737"] denotes 138
32655581-235-242-3171285 557-560 ["19906920"] denotes 120
32655581-234-240-3171286 1017-1019 ["28466096"] denotes 19
32655581-228-235-3171287 1021-1024 ["32479746"] denotes 142
32655581-234-240-3171288 1261-1263 ["28466096"] denotes 19
32655581-236-243-3171289 1653-1656 ["32398875"] denotes 128

2_test

Id Subject Object Predicate Lexical cue
32655581-15602737-34771711 104-107 15602737 denotes 138
32655581-19906920-34771712 557-560 19906920 denotes 120
32655581-28466096-34771713 1017-1019 28466096 denotes 19
32655581-32479746-34771714 1021-1024 32479746 denotes 142
32655581-28466096-34771715 1261-1263 28466096 denotes 19
32655581-32398875-34771716 1653-1656 32398875 denotes 128

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T165 0-109 Sentence denotes There are several key factors that may be responsible for the induction of this dangerous inflammation (138).
T166 110-316 Sentence denotes Both SARS-CoV-1 and MERS-CoV replicate to high titers early in infection, which could lead to enhanced cytopathic effects and increased production of pro-inflammatory cytokines/chemokines by infected cells.
T167 317-562 Sentence denotes Chen et al. developed a pneumonia model where pulmonary replication of SARS-CoV-1 was associated with histopathological evidence of disease, including bronchiolitis, interstitial pneumonitis, diffuse alveolar damage, and fibrotic scarring (120).
T168 563-1026 Sentence denotes They identified a biphasic cellular immune response in which cytokines (TNF-α and IL-6) and chemokines [interferon gamma-induced protein (IP)-10, monocyte chemoattractant protein (MCP)-1, macrophage inflammatory protein (MIP)-1a, RANTES] were produced early, likely by infected airway epithelial cells, alveolar macrophages, and recruited inflammatory monocyte-macrophages and neutrophils, which have been shown to replace resident alveolar macrophages (19, 142).
T169 1027-1265 Sentence denotes SARS-CoV-1 and MERS-CoV encode structural and non-structural proteins that antagonize the interferon response, which may initially delay the innate immune response but eventually potentiate inflammatory monocyte-macrophage responses (19).
T170 1266-1416 Sentence denotes In COVID-19 patients, Liao et al. reported increased lung infiltration by macrophages identified via RNA-seq analysis of bronchoalveolar lavage fluid.
T171 1417-1658 Sentence denotes Patients with mild cases exhibited infiltration by alveolar macrophages [Fatty Acid Binding Protein (FABP)4+] while patients with severe ARDS exhibited infiltration by highly inflammatory [Ficolin (FCN1)+] monocyte-derived macrophages (128).