PMC:7212949 / 8526-10707
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T35 | 392-398 | Body_part | denotes | Sputum | http://purl.org/sig/ont/fma/fma312401 |
| T36 | 542-548 | Body_part | denotes | Sputum | http://purl.org/sig/ont/fma/fma312401 |
| T37 | 756-762 | Body_part | denotes | Sputum | http://purl.org/sig/ont/fma/fma312401 |
| T38 | 778-784 | Body_part | denotes | throat | http://purl.org/sig/ont/fma/fma228738 |
| T39 | 1023-1028 | Body_part | denotes | chest | http://purl.org/sig/ont/fma/fma9576 |
| T40 | 1111-1116 | Body_part | denotes | Chest | http://purl.org/sig/ont/fma/fma9576 |
| T41 | 1176-1180 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T42 | 1352-1360 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T43 | 1484-1492 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T44 | 1505-1515 | Body_part | denotes | pneumocyte | http://purl.org/sig/ont/fma/fma62499 |
| T45 | 1556-1581 | Body_part | denotes | alveolar epithelial cells | http://purl.org/sig/ont/fma/fma62499 |
| T46 | 1576-1581 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T47 | 1604-1609 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T48 | 1618-1631 | Body_part | denotes | blood vessels | http://purl.org/sig/ont/fma/fma63183 |
| T49 | 1618-1623 | Body_part | denotes | blood | http://purl.org/sig/ont/fma/fma9670 |
| T50 | 2166-2174 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T31 | 392-398 | Body_part | denotes | Sputum | http://purl.obolibrary.org/obo/UBERON_0007311 |
| T32 | 542-548 | Body_part | denotes | Sputum | http://purl.obolibrary.org/obo/UBERON_0007311 |
| T33 | 756-762 | Body_part | denotes | Sputum | http://purl.obolibrary.org/obo/UBERON_0007311 |
| T34 | 778-784 | Body_part | denotes | throat | http://purl.obolibrary.org/obo/UBERON_0000341 |
| T35 | 1023-1028 | Body_part | denotes | chest | http://purl.obolibrary.org/obo/UBERON_0001443 |
| T36 | 1111-1116 | Body_part | denotes | Chest | http://purl.obolibrary.org/obo/UBERON_0001443 |
| T37 | 1176-1180 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T38 | 1618-1631 | Body_part | denotes | blood vessels | http://purl.obolibrary.org/obo/UBERON_0001981 |
| T39 | 1618-1623 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
| T40 | 1624-1631 | Body_part | denotes | vessels | http://purl.obolibrary.org/obo/UBERON_0000055 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T52 | 0-8 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T53 | 309-313 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T54 | 425-429 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T55 | 495-499 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T56 | 594-598 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T57 | 654-671 | Disease | denotes | pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005275 |
| T58 | 773-784 | Disease | denotes | Sore throat | http://purl.obolibrary.org/obo/MONDO_0002258 |
| T59 | 841-845 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T60 | 931-935 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T61 | 1524-1535 | Disease | denotes | hyperplasia | http://purl.obolibrary.org/obo/MONDO_0005043 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T57 | 1023-1028 | http://www.ebi.ac.uk/efo/EFO_0000965 | denotes | chest |
| T58 | 1111-1116 | http://www.ebi.ac.uk/efo/EFO_0000965 | denotes | Chest |
| T59 | 1176-1180 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T60 | 1176-1180 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T61 | 1332-1333 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T62 | 1336-1337 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T63 | 1340-1341 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T64 | 1373-1383 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | organizing |
| T65 | 1538-1543 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T66 | 1565-1575 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T67 | 1576-1581 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T68 | 1604-1609 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T69 | 1618-1631 | http://purl.obolibrary.org/obo/UBERON_0001981 | denotes | blood vessels |
| T70 | 1618-1631 | http://www.ebi.ac.uk/efo/EFO_0000817 | denotes | blood vessels |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T5 | 464-466 | Chemical | denotes | RR | http://purl.obolibrary.org/obo/CHEBI_73811 |
| T6 | 1521-1523 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T7 | 1799-1801 | Chemical | denotes | O2 | http://purl.obolibrary.org/obo/CHEBI_15379 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T62 | 309-313 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T63 | 321-326 | Phenotype | denotes | Fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T64 | 333-342 | Phenotype | denotes | Dry cough | http://purl.obolibrary.org/obo/HP_0031246 |
| T65 | 351-358 | Phenotype | denotes | Dyspnea | http://purl.obolibrary.org/obo/HP_0002094 |
| T66 | 407-417 | Phenotype | denotes | Hemoptysis | http://purl.obolibrary.org/obo/HP_0002105 |
| T67 | 495-499 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T68 | 509-514 | Phenotype | denotes | Fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T69 | 523-532 | Phenotype | denotes | Dry cough | http://purl.obolibrary.org/obo/HP_0031246 |
| T70 | 559-566 | Phenotype | denotes | Dyspnea | http://purl.obolibrary.org/obo/HP_0002094 |
| T71 | 681-686 | Phenotype | denotes | Fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T72 | 740-745 | Phenotype | denotes | Cough | http://purl.obolibrary.org/obo/HP_0012735 |
| T73 | 773-784 | Phenotype | denotes | Sore throat | http://purl.obolibrary.org/obo/HP_0033050 |
| T74 | 795-811 | Phenotype | denotes | Nasal congestion | http://purl.obolibrary.org/obo/HP_0001742 |
| T75 | 821-831 | Phenotype | denotes | Hemoptysis | http://purl.obolibrary.org/obo/HP_0002105 |
| T76 | 915-920 | Phenotype | denotes | Fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T77 | 923-928 | Phenotype | denotes | Cough | http://purl.obolibrary.org/obo/HP_0012735 |
| T78 | 1344-1367 | Phenotype | denotes | Diffuse alveolar damage | http://purl.obolibrary.org/obo/HP_0033006 |
| T79 | 1965-1972 | Phenotype | denotes | dyspnea | http://purl.obolibrary.org/obo/HP_0002094 |
| T80 | 1977-1985 | Phenotype | denotes | anorexia | http://purl.obolibrary.org/obo/HP_0002039 |
| T81 | 2158-2181 | Phenotype | denotes | diffuse alveolar damage | http://purl.obolibrary.org/obo/HP_0033006 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T131 | 0-8 | Sentence | denotes | COVID-19 |
| T132 | 9-262 | Sentence | denotes | Study Huang et al (2020)N = 41, confirmed casesRetrospective study Wang et al (2020)N = 138, confirmed casesRetrospective study Guan et al (2020)N = 1099, confirmed casesRetrospective study Zhang et al (2020)N = 1, confirmed casesClinicopathologic study |
| T133 | 263-294 | Sentence | denotes | Clinical features • Smoker (7%) |
| T134 | 295-318 | Sentence | denotes | • Preexisting COPD (2%) |
| T135 | 319-330 | Sentence | denotes | • Fever 98% |
| T136 | 331-348 | Sentence | denotes | • Dry cough (76%) |
| T137 | 349-389 | Sentence | denotes | • Dyspnea (55%), mean 8 days after onset |
| T138 | 390-404 | Sentence | denotes | • Sputum (28%) |
| T139 | 405-422 | Sentence | denotes | • Hemoptysis (5%) |
| T140 | 423-460 | Sentence | denotes | • ARDS (29%), mean 9 days after onset |
| T141 | 461-506 | Sentence | denotes | • ↑RR >24/min (29%) • Preexisting COPD (2.9%) |
| T142 | 507-520 | Sentence | denotes | • Fever 98.6% |
| T143 | 521-539 | Sentence | denotes | • Dry cough (59.4) |
| T144 | 540-556 | Sentence | denotes | • Sputum (26.8%) |
| T145 | 557-591 | Sentence | denotes | • Dyspnea, mean 5 days after onset |
| T146 | 592-678 | Sentence | denotes | • ARDS (19.6%), mean 8 days after onset • Preexisting chronic pulmonary disease (1.1%) |
| T147 | 679-737 | Sentence | denotes | • Fever (43.8% on admission, 88.7% during hospitalization) |
| T148 | 738-753 | Sentence | denotes | • Cough (67.8%) |
| T149 | 754-770 | Sentence | denotes | • Sputum (33.7%) |
| T150 | 771-792 | Sentence | denotes | • Sore throat (13.9%) |
| T151 | 793-818 | Sentence | denotes | • Nasal congestion (4.8%) |
| T152 | 819-838 | Sentence | denotes | • Hemoptysis (0.9%) |
| T153 | 839-852 | Sentence | denotes | • ARDS (3.4%) |
| T154 | 853-878 | Sentence | denotes | • 1.4% case fatality rate |
| T155 | 879-920 | Sentence | denotes | • 4 days median incubation period • Fever |
| T156 | 921-928 | Sentence | denotes | • Cough |
| T157 | 929-982 | Sentence | denotes | • ARDS requiring mechanical ventilation within 1 week |
| T158 | 983-1063 | Sentence | denotes | Key findings on investigations Abnormal chest CT (100%); (98% bilateral) • ↓PaO2 |
| T159 | 1064-1099 | Sentence | denotes | • ↓PaO2:FiO2 • Abnormal CXR (59.1%) |
| T160 | 1100-1127 | Sentence | denotes | • Abnormal Chest CT (86.2%) |
| T161 | 1128-1170 | Sentence | denotes | • Ground glass opacity most common (56.4%) |
| T162 | 1171-1274 | Sentence | denotes | • No lung imaging findings in 17.9% patients with nonsevere disease and in 2.9% with severe disease CT: |
| T163 | 1275-1314 | Sentence | denotes | Patchy bilateral ground glass opacities |
| T164 | 1315-1473 | Sentence | denotes | Histopathology N/A N/A N/A • Diffuse alveolar damage with organizing changes of fibrous plugs, with interstitial fibrosis and chronic inflammatory infiltrates |
| T165 | 1474-1535 | Sentence | denotes | • Denuded alveolar lining with pneumocyte type II hyperplasia |
| T166 | 1536-1631 | Sentence | denotes | • Virus detected on alveolar epithelial cells including desquamated cells, not in blood vessels |
| T167 | 1632-1709 | Sentence | denotes | Key study findings and message • ICU patients had more areas of consolidation |
| T168 | 1710-1771 | Sentence | denotes | • 10% mechanical ventilation rate, mean 10.5 days after onset |
| T169 | 1772-1900 | Sentence | denotes | • 5% ECMO rate • High-flow O2 therapy in 11.1% ICU patients, noninvasive ventilation in 41.7%, and invasive ventilation in 47.2% |
| T170 | 1901-2017 | Sentence | denotes | • Older patients (P < 0.001), patients with more comorbidities, dyspnea and anorexia more likely to require ICU care |
| T171 | 2018-2030 | Sentence | denotes | • Mortality: |
| T172 | 2031-2074 | Sentence | denotes | 4.3% • Mechanical ventilation needed (6.1%) |
| T173 | 2075-2181 | Sentence | denotes | • Radiographic abnormalities often absent Histopathologic findings consistent with diffuse alveolar damage |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1646 | 62-256 | UBERON:0001987 | denotes | pective study Wang et al (2020)N = 138, confirmed casesRetrospective study Guan et al (2020)N = 1099, confirmed casesRetrospective study Zhang et al (2020)N = 1, confirmed casesClinicopathologic |
| T1647 | 321-326 | UBERON:0001987 | denotes | Fever |
| T1648 | 368-370 | GO:0007565 | denotes | an |
| T1649 | 382-386 | DG_29 | denotes | r on |
| T1656 | 634-642 | GO:0007567 | denotes | Preexist |
| T1657 | 642-643 | GO:0007567 | denotes | i |
| T1658 | 723-728 | SP_10 | denotes | spita |
| T1663 | 761-762 | UBERON:0001913 | denotes | m |
| T1664 | 778-779 | GO:0042571 | denotes | t |
| T1665 | 823-825 | GO:0007596 | denotes | mo |
| T1666 | 906-912 | GO:0007567;UBERON:0012101 | denotes | period |
| T1667 | 913-914 | SP_10 | denotes | • |
| T1668 | 931-932 | GO:0007565 | denotes | A |
| T1670 | 936-945 | UBERON:0001004 | denotes | requiring |
| T1671 | 964-968 | GO:0042571 | denotes | tion |
| T1672 | 993-998 | GO:0007565 | denotes | gs on |
| T1673 | 1019-1020 | GO:0007596 | denotes | m |
| T1676 | 1216-1218 | GO:0016265 | denotes | wi |
| T1677 | 1235-1238 | UBERON:0001987 | denotes | ase |
| T1681 | 1388-1391 | GO:0007565 | denotes | ges |
| T1682 | 1392-1394 | UBERON:0012101 | denotes | of |
| T1684 | 1398-1409 | GO:0006955 | denotes | rous plugs, |
| T1685 | 1449-1453 | GO:0007567;UBERON:0012101 | denotes | infl |
| T1687 | 1526-1528 | GO:0007565 | denotes | pe |
| T1688 | 1663-1668 | SP_7 | denotes | • ICU |
| T1689 | 1685-1686 | GO:0016265 | denotes | e |
| T1690 | 1691-1692 | GO:0007567 | denotes | s |
| T1691 | 1735-1736 | SP_7 | denotes | i |
| T1693 | 1810-1811 | SP_7 | denotes | i |
| T1694 | 1875-1876 | GO:0016265 | denotes | s |
| T1695 | 1876-1879 | UBERON:0002107 | denotes | ive |
| T1698 | 1955-1958 | UBERON:0000178 | denotes | bid |
| T1700 | 1991-1997 | UBERON:0002107 | denotes | likely |
| T1701 | 2010-2012 | SP_7 | denotes | CU |
| T1702 | 2015-2019 | GO:0007565 | denotes | re • |
| T113 | 0-20 | SP_7 | denotes | COVID-19 Study Huang |
| T114 | 309-313 | PR:000004197 | denotes | COPD |
| T115 | 392-398 | UBERON:0007311 | denotes | Sputum |
| T116 | 542-548 | UBERON:0007311 | denotes | Sputum |
| T117 | 654-663 | UBERON:0002048 | denotes | pulmonary |
| T118 | 756-762 | UBERON:0007311 | denotes | Sputum |
| T119 | 778-784 | UBERON:0000341 | denotes | throat |
| T120 | 795-800 | UBERON:0000004 | denotes | Nasal |
| T121 | 1023-1028 | UBERON:0001443 | denotes | chest |
| T122 | 1176-1180 | UBERON:0002048 | denotes | lung |
| T123 | 1352-1360 | UBERON:0003215 | denotes | alveolar |
| T124 | 1403-1408 | UBERON:0010148 | denotes | plugs |
| T125 | 1415-1427 | UBERON:0005169 | denotes | interstitial |
| T126 | 1484-1492 | UBERON:0003215 | denotes | alveolar |
| T127 | 1505-1515 | CL:0000322 | denotes | pneumocyte |
| T128 | 1556-1564 | UBERON:0003215;CL:0000322 | denotes | alveolar |
| T129 | 1565-1575 | CL:0000322;UBERON:0000483 | denotes | epithelial |
| T130 | 1576-1581 | CL:0000322 | denotes | cells |
| T131 | 1618-1623 | UBERON:0000178 | denotes | blood |
| T132 | 1624-1635 | UBERON:0001981 | denotes | vessels Key |
| T133 | 1655-1662 | CHEBI:33695;CHEBI:33695 | denotes | message |
| T134 | 1799-1801 | CHEBI:15379;CHEBI:15379 | denotes | O2 |
| T135 | 2166-2174 | UBERON:0003215 | denotes | alveolar |
| T547 | 84-91 | UBERON:0002107 | denotes | al (202 |
| T548 | 114-122 | SP_10 | denotes | sesRetro |
| T549 | 151-159 | SP_9 | denotes | 20)N = 1 |
| T550 | 180-191 | PR:000012546 | denotes | etrospectiv |
| T551 | 225-234 | GO:0010467 | denotes | onfirmed |
| T552 | 242-247 | UBERON:0002107 | denotes | nicop |
| T553 | 270-274 | NCBITaxon:10088 | denotes | l fe |
| T554 | 280-285 | UBERON:0002107 | denotes | • Sm |
| T555 | 354-361 | UBERON:0002107 | denotes | pnea (5 |
| T556 | 391-404 | CL:0000091 | denotes | Sputum (28%) |
| T557 | 409-420 | CL:0000235 | denotes | moptysis (5 |
| T558 | 441-452 | NCBITaxon:11118 | denotes | 9 days aft |
| T559 | 529-540 | GO:0006953 | denotes | ugh (59.4) |
| T560 | 559-564 | PR:000000134 | denotes | Dyspn |
| T561 | 566-571 | PR:000001373 | denotes | , mea |
| T562 | 576-581 | PR:000001092 | denotes | ays a |
| T563 | 669-674 | UBERON:0002107 | denotes | se (1 |
| T564 | 683-691 | SP_7 | denotes | ver (43. |
| T565 | 761-769 | SP_7 | denotes | m (33.7% |
| T566 | 784-789 | UBERON:0002107 | denotes | (13. |
| T567 | 822-827 | UBERON:0002107 | denotes | emopt |
| T568 | 837-846 | CHEBI:16990;CHEBI:16990 | denotes | ) • ARDS |
| T569 | 851-858 | CHEBI:24996;CHEBI:24996 | denotes | ) • 1.4 |
| T570 | 980-987 | UBERON:0002107 | denotes | ek Key |
| T571 | 1073-1078 | UBERON:0002107 | denotes | iO2 • |
| T572 | 1108-1116 | SP_7 | denotes | al Chest |
| T573 | 1149-1163 | CL:1000488 | denotes | y most common |
| T574 | 1175-1182 | UBERON:0002294 | denotes | lung i |
| T575 | 1183-1192 | UBERON:0000483 | denotes | aging fin |
| T576 | 1219-1229 | GO:0010467 | denotes | h nonsever |
| T577 | 1233-1237 | G_3;PG_10;PR:000003622 | denotes | seas |
| T578 | 1291-1298 | GO:0008152 | denotes | ground |
| T579 | 1305-1310 | UBERON:0002107 | denotes | opaci |
| T580 | 1462-1470 | SP_10 | denotes | infiltra |
| T581 | 1471-1488 | UBERON:0005409 | denotes | es • Denuded alve |
| T582 | 1490-1492 | UBERON:0005409 | denotes | ar |
| T583 | 1509-1517 | SP_10 | denotes | mocyte t |
| T584 | 1610-1612 | UBERON:0005409 | denotes | n |
| T585 | 1649-1651 | UBERON:0005409 | denotes | s |
| T586 | 1809-1818 | UBERON:0000916 | denotes | in 11.1% |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 128 | 0-8 | Disease | denotes | COVID-19 | MESH:C000657245 |