PMC:7324763 / 27869-29527
Annnotations
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). |