PMC:7386875 / 7299-9290
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T22 | 192-196 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T23 | 197-213 | Body_part | denotes | epithelial cells | http://purl.org/sig/ont/fma/fma66768 |
| T24 | 208-213 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T25 | 260-272 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T26 | 341-348 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T27 | 425-432 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T28 | 516-522 | Body_part | denotes | serine | http://purl.org/sig/ont/fma/fma82764 |
| T29 | 626-631 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T30 | 768-777 | Body_part | denotes | cytokines | http://purl.org/sig/ont/fma/fma84050 |
| T31 | 782-792 | Body_part | denotes | chemokines | http://purl.org/sig/ont/fma/fma241981 |
| T32 | 808-819 | Body_part | denotes | endothelium | http://purl.org/sig/ont/fma/fma63916 |
| T33 | 855-876 | Body_part | denotes | von Willebrand factor | http://purl.org/sig/ont/fma/fma81101 |
| T34 | 911-915 | Body_part | denotes | ICAM | http://purl.org/sig/ont/fma/fma67857 |
| T35 | 959-969 | Body_part | denotes | P-selectin | http://purl.org/sig/ont/fma/fma62933 |
| T36 | 974-984 | Body_part | denotes | E-selectin | http://purl.org/sig/ont/fma/fma62932 |
| T37 | 1011-1020 | Body_part | denotes | platelets | http://purl.org/sig/ont/fma/fma62851 |
| T38 | 1025-1035 | Body_part | denotes | leukocytes | http://purl.org/sig/ont/fma/fma62852 |
| T39 | 1063-1074 | Body_part | denotes | Neutrophils | http://purl.org/sig/ont/fma/fma62860 |
| T40 | 1083-1093 | Body_part | denotes | neutrophil | http://purl.org/sig/ont/fma/fma62860 |
| T41 | 1253-1261 | Body_part | denotes | monocyte | http://purl.org/sig/ont/fma/fma62864 |
| T42 | 1262-1268 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T43 | 1290-1298 | Body_part | denotes | platelet | http://purl.org/sig/ont/fma/fma62851 |
| T44 | 1396-1405 | Body_part | denotes | cytokines | http://purl.org/sig/ont/fma/fma84050 |
| T45 | 1415-1426 | Body_part | denotes | endothelium | http://purl.org/sig/ont/fma/fma63916 |
| T46 | 1440-1455 | Body_part | denotes | (interleukin)-1 | http://purl.org/sig/ont/fma/fma86583 |
| T47 | 1441-1452 | Body_part | denotes | interleukin | http://purl.org/sig/ont/fma/fma86578 |
| T48 | 1505-1509 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T49 | 1550-1558 | Body_part | denotes | monocyte | http://purl.org/sig/ont/fma/fma62864 |
| T50 | 1575-1582 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T6 | 192-196 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T7 | 808-819 | Body_part | denotes | endothelium | http://purl.obolibrary.org/obo/UBERON_0001986 |
| T8 | 1262-1268 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T9 | 1415-1426 | Body_part | denotes | endothelium | http://purl.obolibrary.org/obo/UBERON_0001986 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T86 | 23-70 | Disease | denotes | severe acute respiratory syndrome coronavirus 2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T87 | 23-56 | Disease | denotes | severe acute respiratory syndrome | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T88 | 72-80 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T89 | 102-126 | Disease | denotes | coronavirus disease 2019 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T90 | 128-136 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T91 | 149-159 | Disease | denotes | thrombosis | http://purl.obolibrary.org/obo/MONDO_0000831 |
| T92 | 161-169 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T93 | 552-560 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T94 | 1336-1348 | Disease | denotes | inflammation | http://purl.obolibrary.org/obo/MONDO_0021166 |
| T95 | 1787-1795 | Disease | denotes | thrombus | http://purl.obolibrary.org/obo/MONDO_0000831 |
| T96 | 1982-1990 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T53 | 192-213 | http://purl.obolibrary.org/obo/CL_0000082 | denotes | lung epithelial cells |
| T54 | 321-323 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
| T55 | 440-442 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
| T56 | 445-453 | http://purl.obolibrary.org/obo/UBERON_0007651 | denotes | junction |
| T57 | 626-631 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T58 | 798-807 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activated |
| T59 | 808-819 | http://purl.obolibrary.org/obo/UBERON_0001986 | denotes | endothelium |
| T60 | 1051-1061 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T61 | 1137-1147 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T62 | 1183-1193 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T63 | 1253-1261 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocyte |
| T64 | 1299-1309 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T65 | 1415-1426 | http://purl.obolibrary.org/obo/UBERON_0001986 | denotes | endothelium |
| T66 | 1440-1455 | http://purl.obolibrary.org/obo/PR_000001091 | denotes | (interleukin)-1 |
| T67 | 1457-1461 | http://purl.obolibrary.org/obo/CLO_0053704 | denotes | IL-8 |
| T68 | 1484-1494 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T69 | 1503-1509 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T-cell |
| T70 | 1550-1558 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocyte |
| T71 | 1857-1858 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T72 | 1881-1891 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activation |
| T73 | 1907-1908 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T26 | 260-272 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T27 | 283-294 | Chemical | denotes | angiotensin | http://purl.obolibrary.org/obo/CHEBI_48433 |
| T28 | 341-348 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T29 | 425-432 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T30 | 516-522 | Chemical | denotes | serine | http://purl.obolibrary.org/obo/CHEBI_17822 |
| T31 | 891-900 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T32 | 940-948 | Chemical | denotes | molecule | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T33 | 1277-1279 | Chemical | denotes | TF | http://purl.obolibrary.org/obo/CHEBI_74862 |
| T34 | 1437-1439 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T36 | 1457-1459 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T38 | 1535-1537 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T40 | 1545-1548 | Chemical | denotes | MCP | http://purl.obolibrary.org/obo/CHEBI_132592|http://purl.obolibrary.org/obo/CHEBI_50099 |
| T42 | 1575-1582 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T43 | 1685-1687 | Chemical | denotes | TF | http://purl.obolibrary.org/obo/CHEBI_74862 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T11 | 1628-1635 | Phenotype | denotes | hypoxia | http://purl.obolibrary.org/obo/HP_0012418 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T14 | 178-191 | http://purl.obolibrary.org/obo/GO_0044409 | denotes | entry to host |
| T15 | 640-650 | http://purl.obolibrary.org/obo/GO_0070269 | denotes | pyroptosis |
| T16 | 1040-1061 | http://purl.obolibrary.org/obo/GO_0006956 | denotes | complement activation |
| T17 | 1172-1193 | http://purl.obolibrary.org/obo/GO_0006956 | denotes | Complement activation |
| T18 | 1290-1309 | http://purl.obolibrary.org/obo/GO_0030168 | denotes | platelet activation |
| T19 | 1336-1348 | http://purl.obolibrary.org/obo/GO_0006954 | denotes | inflammation |
| T20 | 1796-1805 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | formation |
| T21 | 1818-1829 | http://purl.obolibrary.org/obo/GO_0009056 | denotes | degradation |
| T22 | 1869-1880 | http://purl.obolibrary.org/obo/GO_0050817 | denotes | coagulation |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T33 | 0-160 | Sentence | denotes | Proposed mechanisms of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) transmission, and coronavirus disease 2019 (COVID-19)-associated thrombosis. |
| T34 | 161-316 | Sentence | denotes | SARS-CoV-2 gains entry to host lung epithelial cells by the binding of the transmembrane spike (S) glycoprotein to ACE-2 (angiotensin-converting enzyme 2). |
| T35 | 317-394 | Sentence | denotes | The S1 subunit of the S protein binds to ACE-2 and mediates viral attachment. |
| T36 | 395-551 | Sentence | denotes | Proteolytic cleavage of the S protein at the S1/2 junction by the proteases, furin, and TMPRSS-2 (transmembrane protease serine 2), facilitates viral entry. |
| T37 | 552-616 | Sentence | denotes | SARS-CoV-2 can also directly invade endothelial expressed ACE-2. |
| T38 | 617-793 | Sentence | denotes | Infected cells undergo pyroptosis leading to the release of danger-associated molecular patterns (DAMPs) and triggering the release of proinflammatory cytokines and chemokines. |
| T39 | 794-1062 | Sentence | denotes | The activated endothelium upregulates the expression of VWF (von Willebrand factor) and adhesion molecules including ICAM (intercellular adhesion molecule)-1, αvβ3, P-selectin and E-selectin leading to recruitment of platelets and leukocytes and complement activation. |
| T40 | 1063-1171 | Sentence | denotes | Neutrophils release neutrophil extracellular traps (NETS), causing direct activation of the contact pathway. |
| T41 | 1172-1586 | Sentence | denotes | Complement activation potentiates these mechanisms by increasing endothelial and monocyte tissue factor (TF), further platelet activation and amplifies endothelial inflammation, which increases production of proinflammatory cytokines from the endothelium including IL (interleukin)-1, IL-8, RANTES (regulated on activation, normal T-cell expressed and secreted), IL-6, and MCP (monocyte chemoattractant protein)-1. |
| T42 | 1587-1699 | Sentence | denotes | The hypoxic environment can induce HIFs (hypoxia-inducible factors) which upregulates endothelial TF expression. |
| T43 | 1700-1806 | Sentence | denotes | These mechanisms ultimately lead to the unchecked generation of thrombin, resulting in thrombus formation. |
| T44 | 1807-1991 | Sentence | denotes | The fibrin degradation product, D-dimer, which is a marker of coagulation activation, appears to be a strong prognostic marker associated with high mortality in patients with COVID-19. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 316 | 276-281 | Gene | denotes | ACE-2 | Gene:59272 |
| 317 | 283-314 | Gene | denotes | angiotensin-converting enzyme 2 | Gene:59272 |
| 318 | 358-363 | Gene | denotes | ACE-2 | Gene:59272 |
| 319 | 472-477 | Gene | denotes | furin | Gene:5045 |
| 320 | 483-491 | Gene | denotes | TMPRSS-2 | Gene:7113 |
| 321 | 493-524 | Gene | denotes | transmembrane protease serine 2 | Gene:7113 |
| 322 | 610-615 | Gene | denotes | ACE-2 | Gene:59272 |
| 323 | 850-853 | Gene | denotes | VWF | Gene:7450 |
| 324 | 855-876 | Gene | denotes | von Willebrand factor | Gene:7450 |
| 325 | 917-951 | Gene | denotes | intercellular adhesion molecule)-1 | Gene:3383 |
| 326 | 959-969 | Gene | denotes | P-selectin | Gene:6403 |
| 327 | 974-984 | Gene | denotes | E-selectin | Gene:6401 |
| 328 | 1262-1275 | Gene | denotes | tissue factor | Gene:2152 |
| 329 | 1437-1455 | Gene | denotes | IL (interleukin)-1 | Gene:3552 |
| 330 | 1457-1461 | Gene | denotes | IL-8 | Gene:3576 |
| 331 | 1463-1469 | Gene | denotes | RANTES | Gene:6352 |
| 332 | 1535-1539 | Gene | denotes | IL-6 | Gene:3569 |
| 333 | 1545-1548 | Gene | denotes | MCP | Gene:4179 |
| 334 | 1550-1585 | Gene | denotes | monocyte chemoattractant protein)-1 | Gene:6347 |
| 335 | 1764-1772 | Gene | denotes | thrombin | Gene:2147 |
| 336 | 1685-1687 | Gene | denotes | TF | Gene:2152 |
| 337 | 1277-1279 | Gene | denotes | TF | Gene:2152 |
| 338 | 23-70 | Species | denotes | severe acute respiratory syndrome coronavirus 2 | Tax:2697049 |
| 339 | 72-82 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 340 | 161-171 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 341 | 552-562 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 342 | 1968-1976 | Species | denotes | patients | Tax:9606 |
| 343 | 250-255 | Gene | denotes | spike | Gene:43740568 |
| 344 | 102-126 | Disease | denotes | coronavirus disease 2019 | MESH:C000657245 |
| 345 | 128-136 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 346 | 149-159 | Disease | denotes | thrombosis | MESH:D013927 |
| 347 | 617-625 | Disease | denotes | Infected | MESH:D007239 |
| 348 | 1336-1348 | Disease | denotes | inflammation | MESH:D007249 |
| 349 | 1622-1626 | Disease | denotes | HIFs | |
| 350 | 1628-1635 | Disease | denotes | hypoxia | MESH:D000860 |
| 351 | 1787-1795 | Disease | denotes | thrombus | MESH:D013927 |
| 352 | 1955-1964 | Disease | denotes | mortality | MESH:D003643 |
| 353 | 1982-1990 | Disease | denotes | COVID-19 | MESH:C000657245 |