PMC:7340597 / 1949-4087
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T4 | 306-312 | Body_part | denotes | thorax | http://purl.org/sig/ont/fma/fma9576 |
| T5 | 589-593 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T6 | 1322-1328 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T7 | 1474-1482 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T8 | 1803-1807 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T9 | 1808-1814 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T3 | 589-593 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T4 | 1322-1328 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T5 | 1803-1807 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T6 | 1808-1814 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 119 | 78-86 | Species | denotes | patients | Tax:9606 |
| 120 | 208-216 | Species | denotes | patients | Tax:9606 |
| 121 | 494-502 | Species | denotes | patients | Tax:9606 |
| 122 | 1050-1058 | Species | denotes | patients | Tax:9606 |
| 123 | 1166-1174 | Species | denotes | patients | Tax:9606 |
| 124 | 1452-1460 | Species | denotes | patients | Tax:9606 |
| 125 | 1824-1832 | Species | denotes | patients | Tax:9606 |
| 126 | 42-66 | Disease | denotes | coronavirus disease 2019 | MESH:C000657245 |
| 127 | 68-76 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 128 | 160-179 | Disease | denotes | respiratory failure | MESH:D012131 |
| 129 | 343-378 | Disease | denotes | acute respiratory distress syndrome | MESH:D012128 |
| 130 | 380-384 | Disease | denotes | ARDS | MESH:D012128 |
| 131 | 485-493 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 132 | 575-579 | Disease | denotes | ARDS | MESH:D012128 |
| 133 | 910-924 | Disease | denotes | thromboembolic | MESH:D013923 |
| 134 | 955-968 | Disease | denotes | aspergillosis | MESH:D001228 |
| 135 | 998-1020 | Disease | denotes | venous thromboembolism | MESH:D054556 |
| 136 | 1041-1049 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 137 | 1093-1116 | Disease | denotes | pulmonary aspergillosis | MESH:D055732 |
| 138 | 1157-1165 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 139 | 1204-1212 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 140 | 1221-1225 | Disease | denotes | ARDS | MESH:D012128 |
| 141 | 1286-1290 | Disease | denotes | ARDS | MESH:D012128 |
| 142 | 1351-1369 | Disease | denotes | infectious disease | MESH:D003141 |
| 143 | 1443-1451 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 144 | 1474-1489 | Disease | denotes | alveolar damage | MESH:D055370 |
| 145 | 1510-1514 | Disease | denotes | ARDS | MESH:D012128 |
| 146 | 1561-1569 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 147 | 1581-1604 | Disease | denotes | pulmonary aspergillosis | MESH:D055732 |
| 148 | 1681-1690 | Disease | denotes | mortality | MESH:D003643 |
| 149 | 1839-1844 | Disease | denotes | COVID | MESH:C000657245 |
| 150 | 1853-1857 | Disease | denotes | ARDS | MESH:D012128 |
| 151 | 2083-2091 | Disease | denotes | COVID-19 | MESH:C000657245 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T35 | 42-66 | Disease | denotes | coronavirus disease 2019 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T36 | 68-76 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T37 | 160-179 | Disease | denotes | respiratory failure | http://purl.obolibrary.org/obo/MONDO_0021113 |
| T38 | 343-378 | Disease | denotes | acute respiratory distress syndrome | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T39 | 349-378 | Disease | denotes | respiratory distress syndrome | http://purl.obolibrary.org/obo/MONDO_0009971 |
| T40 | 380-384 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T41 | 485-493 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T42 | 575-579 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T43 | 955-968 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T44 | 998-1020 | Disease | denotes | venous thromboembolism | http://purl.obolibrary.org/obo/MONDO_0005399 |
| T45 | 1041-1049 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T46 | 1103-1116 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T47 | 1157-1165 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T48 | 1204-1212 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T49 | 1221-1225 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T50 | 1286-1290 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T51 | 1351-1369 | Disease | denotes | infectious disease | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T52 | 1443-1451 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T53 | 1510-1514 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T54 | 1561-1569 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T55 | 1591-1604 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T56 | 1606-1610 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T57 | 1744-1748 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T58 | 1853-1857 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T59 | 2083-2091 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T15 | 193-199 | http://purl.obolibrary.org/obo/CLO_0001302 | denotes | 3], [4 |
| T16 | 306-312 | http://www.ebi.ac.uk/efo/EFO_0000965 | denotes | thorax |
| T17 | 589-593 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T18 | 589-593 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T19 | 861-862 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T20 | 1523-1525 | http://purl.obolibrary.org/obo/CLO_0053733 | denotes | 11 |
| T21 | 1803-1807 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T22 | 1803-1807 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T2 | 1645-1655 | Chemical | denotes | antifungal | http://purl.obolibrary.org/obo/CHEBI_35718 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T7 | 160-179 | Phenotype | denotes | respiratory failure | http://purl.obolibrary.org/obo/HP_0002878 |
| T8 | 349-369 | Phenotype | denotes | respiratory distress | http://purl.obolibrary.org/obo/HP_0002098 |
| T9 | 910-924 | Phenotype | denotes | thromboembolic | http://purl.obolibrary.org/obo/HP_0001907 |
| T10 | 1005-1020 | Phenotype | denotes | thromboembolism | http://purl.obolibrary.org/obo/HP_0001907 |
| T11 | 1466-1489 | Phenotype | denotes | diffuse alveolar damage | http://purl.obolibrary.org/obo/HP_0033006 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T23 | 0-15 | Sentence | denotes | 1 Introduction |
| T24 | 16-386 | Sentence | denotes | Up to 20% of hospitalized coronavirus disease 2019 (COVID-19) patients are admitted to the intensive care unit (ICU) because of acute hypoxemic respiratory failure. [[1], [2], [3], [4]] These patients usually present with bilateral patchy ground glass opacities on computed tomography (CT) thorax fulfilling the definition for acute respiratory distress syndrome (ARDS). |
| T25 | 387-821 | Sentence | denotes | Often an atypical high compliance phenotype (L-type) is observed during mechanical ventilation in COVID-19 patients in contrast to mechanical ventilation characteristics typically seen in ARDS with low lung compliance phenotype (H -type). [5,6] During ICU stay the radiologic presentation of bilateral patchy ground glass opacities as present at admission often progress to consolidations with or without fibrotic characteristics [7]. |
| T26 | 822-969 | Sentence | denotes | Two earlier observed features may play a critical role in the severity of this disease: thromboembolic complications and early onset aspergillosis. |
| T27 | 970-1083 | Sentence | denotes | The cumulative incidence of venous thromboembolism reported was 49% in COVID-19 patients admitted to the ICU [8]. |
| T28 | 1084-1179 | Sentence | denotes | Presumed pulmonary aspergillosis may be present in as much as 19% of ICU COVID-19 patients [9]. |
| T29 | 1180-1398 | Sentence | denotes | Since the physiology in COVID-19 related ARDS as well as its complications seems to differ from “typical’ ARDS, an insight into the pulmonary tissue pathology of this new infectious disease is of the utmost importance. |
| T30 | 1399-1534 | Sentence | denotes | The scarcely available pathological data in COVID-19 patients show diffuse alveolar damage, closely related to ARDS [[10], [11], [12]]. |
| T31 | 1535-1770 | Sentence | denotes | The clinical relevance of COVID-19-associated pulmonary aspergillosis (CAPA) as well as survival benefit with antifungal treatment and associated mortality are under debate since histopathological evidence of CAPA is not obtained [13]. |
| T32 | 1771-1892 | Sentence | denotes | We examined postmortem obtained lung tissue in seven patients, with COVID related ARDS who needed mechanical ventilation. |
| T33 | 1893-2016 | Sentence | denotes | The histopathologic findings, together with clinical features, radiological and microbiological findings are reported here. |
| T34 | 2017-2138 | Sentence | denotes | This report may contribute to new insights in the pathogeneses of COVID-19 as well as suggestions for treatment strategy. |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T44 | 1443-1451 | SP_7 | denotes | COVID-19 |
| T27 | 42-53 | NCBITaxon:11118 | denotes | coronavirus |
| T28 | 68-76 | SP_7 | denotes | COVID-19 |
| T29 | 117-121 | UBERON:0007221 | denotes | care |
| T30 | 160-171 | UBERON:0001004 | denotes | respiratory |
| T31 | 306-312 | UBERON:0000915 | denotes | thorax |
| T32 | 349-360 | UBERON:0001004 | denotes | respiratory |
| T33 | 485-493 | SP_7 | denotes | COVID-19 |
| T34 | 589-593 | UBERON:0002048 | denotes | lung |
| T35 | 910-924 | GO:0007596 | denotes | thromboembolic |
| T36 | 998-1004 | UBERON:0001638 | denotes | venous |
| T37 | 1005-1020 | GO:0007596 | denotes | thromboembolism |
| T38 | 1041-1049 | SP_7 | denotes | COVID-19 |
| T39 | 1093-1102 | UBERON:0002048 | denotes | pulmonary |
| T40 | 1157-1165 | SP_7 | denotes | COVID-19 |
| T41 | 1204-1212 | SP_7 | denotes | COVID-19 |
| T42 | 1312-1321 | UBERON:0002048 | denotes | pulmonary |
| T43 | 1322-1328 | UBERON:0000479 | denotes | tissue |
| T45 | 1474-1482 | UBERON:0003215 | denotes | alveolar |
| T46 | 1561-1569 | SP_7 | denotes | COVID-19 |
| T47 | 1581-1590 | UBERON:0002048 | denotes | pulmonary |
| T48 | 1783-1793 | GO:0016265 | denotes | postmortem |
| T49 | 1803-1807 | UBERON:0002048 | denotes | lung |
| T50 | 1808-1814 | UBERON:0000479 | denotes | tissue |
| T51 | 2083-2091 | SP_7 | denotes | COVID-19 |
| T62119 | 1839-1844 | SP_7 | denotes | COVID |
| T66936 | 225-233 | SP_7 | denotes | present |
| T35906 | 363-375 | SP_7 | denotes | stress syndr |
| T89649 | 376-386 | SP_7;UBERON:0001004 | denotes | me (ARDS). |
| T80423 | 387-410 | SP_7 | denotes | Often an atypical high |
| T77332 | 412-422 | SP_7 | denotes | mpliance p |
| T23414 | 467-477 | UBERON:0001004 | denotes | al ventila |
| T23002 | 545-555 | GO:0016265 | denotes | acteristic |
| T60852 | 583-587 | UBERON:0002048 | denotes | h lo |
| T36899 | 637-647 | SP_7 | denotes | g ICU stay |
| T82912 | 678-699 | GO:0001171 | denotes | bilateral patchy gro |
| T17380 | 738-744 | UBERON:0007311 | denotes | sion o |
| T17660 | 752-759 | UBERON:0004242 | denotes | gress t |
| T50696 | 833-842 | GO:0007586;UBERON:0001555 | denotes | observed |
| T86112 | 843-848 | UBERON:0001555 | denotes | featu |
| T42737 | 872-883 | CHEBI:3638;DG_10;CHEBI:3638 | denotes | role in the |
| T83979 | 1018-1033 | GO:0050817 | denotes | sm reported was |
| T7331 | 1060-1067 | CHEBI:24505;CHEBI:24505 | denotes | dmitted |
| T34114 | 1165-1174 | UBERON:0002048 | denotes | patients |
| T52553 | 1250-1259 | UBERON:0002048 | denotes | ions seem |
| T21703 | 1352-1365 | CHEBI:27680;CHEBI:27680 | denotes | nfectious dis |
| T97231 | 1367-1372 | UBERON:0001977 | denotes | se is |
| T41661 | 1377-1383 | UBERON:0007311 | denotes | he utm |
| T93902 | 1386-1394 | UBERON:0003126 | denotes | importa |
| T75668 | 1398-1405 | UBERON:0004242 | denotes | The sc |
| T99671 | 1419-1432 | CHEBI:27680;CHEBI:27680 | denotes | le pathologic |
| T86981 | 1451-1466 | UBERON:0002031 | denotes | patients show |
| T51837 | 1467-1473 | UBERON:0004821 | denotes | iffuse |
| T19506 | 1507-1514 | CHEBI:59132;CHEBI:59132 | denotes | to ARDS |
| T9649 | 1593-1602 | UBERON:0002048 | denotes | pergillos |
| T41715 | 1824-1829 | UBERON:0001977 | denotes | patie |
| T81615 | 1834-1845 | NCBITaxon:5052 | denotes | with COVID |
| T80302 | 1874-1884 | GO:0016265 | denotes | nical vent |
| T65199 | 1911-1915 | UBERON:0002048 | denotes | c fi |
| T43236 | 1961-1971 | GO:0016265 | denotes | logical an |
| T69714 | 2014-2019 | UBERON:0000170 | denotes | e. Th |
| T56052 | 2041-2046 | GO:0016265 | denotes | te to |
| T98173 | 2048-2052 | UBERON:0002048 | denotes | ew i |
| T61880 | 2116-2124 | UBERON:0001062 | denotes | or treat |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32674001-32109013-58631465 | 183-184 | 32109013 | denotes | 1 |
| 32674001-32320003-58631466 | 193-194 | 32320003 | denotes | 3 |
| 32674001-32091533-58631467 | 198-199 | 32091533 | denotes | 4 |
| 32674001-32228035-58631468 | 627-628 | 32228035 | denotes | 5 |
| 32674001-32105637-58631469 | 818-819 | 32105637 | denotes | 7 |
| 32674001-32381264-58631470 | 1080-1081 | 32381264 | denotes | 8 |