PMC:7560789 / 8176-9438
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T11 | 399-407 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T12 | 678-682 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T13 | 747-751 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T3 | 678-682 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T4 | 747-751 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T53 | 129-138 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T54 | 348-356 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T60 | 0-1 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T61 | 107-108 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T62 | 277-278 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T63 | 299-300 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T64 | 380-381 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T65 | 511-512 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T66 | 678-682 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T67 | 678-682 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T68 | 701-702 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T69 | 745-746 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T70 | 747-751 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T71 | 747-751 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T72 | 872-877 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T73 | 951-952 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T74 | 1021-1028 | http://purl.obolibrary.org/obo/UBERON_0001005 | denotes | airways |
| T75 | 1057-1058 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T128 | 20-23 | Chemical | denotes | BAL | http://purl.obolibrary.org/obo/CHEBI_64198 |
| T129 | 69-71 | Chemical | denotes | GM | http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680 |
| T131 | 72-79 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
| T132 | 150-153 | Chemical | denotes | IPA | http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802 |
| T134 | 572-575 | Chemical | denotes | BAL | http://purl.obolibrary.org/obo/CHEBI_64198 |
| T135 | 607-609 | Chemical | denotes | GM | http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680 |
| T137 | 715-718 | Chemical | denotes | BAL | http://purl.obolibrary.org/obo/CHEBI_64198 |
| T138 | 784-787 | Chemical | denotes | IPA | http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802 |
| T140 | 1066-1068 | Chemical | denotes | GM | http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680 |
| T142 | 1197-1199 | Chemical | denotes | GM | http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T65 | 0-154 | Sentence | denotes | A bronchoscopy with BAL is the preferred diagnostic approach because GM antigen detection and culture have a good sensitivity in influenza-associated IPA. |
| T66 | 155-420 | Sentence | denotes | However, given the risk of aerosolization, The American Association for Bronchology and Interventional Pulmonology issued a statement providing a limited role for bronchoscopy in patients with COVID-19, advocating the use of a nonbronchoscopic alveolar lavage (10). |
| T67 | 421-546 | Sentence | denotes | The technique we used in this study minimizes the risk for care providers while providing a diagnostic tool for our patients. |
| T68 | 547-620 | Sentence | denotes | However, the nondirected BAL technique is not validated for GM detection. |
| T69 | 621-895 | Sentence | denotes | As all patients had consolidations in all regions of the lung, the chances that a nondirected BAL may result in sampling of a lung region that was not affected by IPA may be low, although it is unclear to which extent consolidations are caused by the virus or by the fungus. |
| T70 | 896-1029 | Sentence | denotes | More importantly, we cannot rule out overdiagnosis, as a nondirected sample may not always reflect microbiology of the lower airways. |
| T71 | 1030-1108 | Sentence | denotes | Therefore, instead of 0.5, a cutoff GM index of 1.0 was applied in this study. |
| T72 | 1109-1158 | Sentence | denotes | Nevertheless, sampling error cannot be ruled out. |
| T73 | 1159-1262 | Sentence | denotes | Of note, however, concordance between GM index >1.0 and positive Aspergillus cultures was high (77.8%). |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T11 | 69-71 | GlycoEpitope | denotes | GM | http://www.glycoepitope.jp/epitopes/EP0510 |
| T12 | 607-609 | GlycoEpitope | denotes | GM | http://www.glycoepitope.jp/epitopes/EP0510 |
| T13 | 1066-1068 | GlycoEpitope | denotes | GM | http://www.glycoepitope.jp/epitopes/EP0510 |
| T14 | 1197-1199 | GlycoEpitope | denotes | GM | http://www.glycoepitope.jp/epitopes/EP0510 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T64 | 150-153 | Phenotype | denotes | IPA | http://purl.obolibrary.org/obo/HP_0020103 |
| T65 | 784-787 | Phenotype | denotes | IPA | http://purl.obolibrary.org/obo/HP_0020103 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 246 | 334-342 | Species | denotes | patients | Tax:9606 |
| 247 | 537-545 | Species | denotes | patients | Tax:9606 |
| 248 | 628-636 | Species | denotes | patients | Tax:9606 |
| 249 | 1224-1235 | Species | denotes | Aspergillus | Tax:746128 |
| 250 | 69-79 | Chemical | denotes | GM antigen | |
| 251 | 607-609 | Chemical | denotes | GM | MESH:C012990 |
| 252 | 1197-1199 | Chemical | denotes | GM | MESH:C012990 |
| 253 | 348-356 | Disease | denotes | COVID-19 | MESH:C000657245 |