PMC:7646269 / 3376-5336
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T2 | 1825-1838 | https://glytoucan.org/Structures/Glycans/G93424OB | denotes | galactomannan |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T3 | 552-556 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T4 | 1819-1824 | Body_part | denotes | Serum | http://purl.org/sig/ont/fma/fma63083 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T3 | 552-556 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T4 | 1819-1824 | Body_part | denotes | Serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T25 | 31-39 | Disease | denotes | COVID‐19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T26 | 295-301 | Disease | denotes | Cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T27 | 378-385 | Disease | denotes | Allergy | http://purl.obolibrary.org/obo/MONDO_0005271 |
| T28 | 390-400 | Disease | denotes | Infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T29 | 410-417 | Disease | denotes | Mycoses | http://purl.obolibrary.org/obo/MONDO_0002041 |
| T30 | 466-477 | Disease | denotes | neutropenia | http://purl.obolibrary.org/obo/MONDO_0001475 |
| T31 | 552-564 | Disease | denotes | lung disease | http://purl.obolibrary.org/obo/MONDO_0005275 |
| T32 | 566-603 | Disease | denotes | chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T33 | 586-603 | Disease | denotes | pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005275 |
| T34 | 1063-1072 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T18 | 0-1 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T19 | 252-264 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | Organization |
| T20 | 537-538 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T21 | 552-556 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T22 | 552-556 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T23 | 1645-1646 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T24 | 1672-1676 | http://purl.obolibrary.org/obo/CLO_0053001 | denotes | 1‐14 |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T19 | 213-216 | Chemical | denotes | IPA | http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802 |
| T21 | 437-440 | Chemical | denotes | MSG | http://purl.obolibrary.org/obo/CHEBI_64220|http://purl.obolibrary.org/obo/CHEBI_64243 |
| T23 | 499-514 | Chemical | denotes | corticosteroids | http://purl.obolibrary.org/obo/CHEBI_50858 |
| T24 | 777-787 | Chemical | denotes | antibiotic | http://purl.obolibrary.org/obo/CHEBI_33281 |
| T25 | 835-849 | Chemical | denotes | glucocorticoid | http://purl.obolibrary.org/obo/CHEBI_24261 |
| T26 | 865-875 | Chemical | denotes | prednisone | http://purl.obolibrary.org/obo/CHEBI_8382 |
| T27 | 1405-1408 | Chemical | denotes | IPA | http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802 |
| T29 | 1825-1838 | Chemical | denotes | galactomannan | http://purl.obolibrary.org/obo/CHEBI_27680 |
| T30 | 1941-1951 | Chemical | denotes | antibiotic | http://purl.obolibrary.org/obo/CHEBI_33281 |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T2 | 1825-1838 | GlycoEpitope | denotes | galactomannan | http://www.glycoepitope.jp/epitopes/EP0510 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T15 | 213-216 | Phenotype | denotes | IPA | http://purl.obolibrary.org/obo/HP_0020103 |
| T16 | 295-301 | Phenotype | denotes | Cancer | http://purl.obolibrary.org/obo/HP_0002664 |
| T17 | 303-329 | Phenotype | denotes | Invasive Fungal Infections | http://purl.obolibrary.org/obo/HP_0020101 |
| T18 | 378-385 | Phenotype | denotes | Allergy | http://purl.obolibrary.org/obo/HP_0012393 |
| T19 | 466-477 | Phenotype | denotes | neutropenia | http://purl.obolibrary.org/obo/HP_0001875 |
| T20 | 552-564 | Phenotype | denotes | lung disease | http://purl.obolibrary.org/obo/HP_0002088 |
| T21 | 566-603 | Phenotype | denotes | chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/HP_0006510 |
| T22 | 659-664 | Phenotype | denotes | fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T23 | 731-756 | Phenotype | denotes | respiratory insufficiency | http://purl.obolibrary.org/obo/HP_0002093 |
| T24 | 1063-1072 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
| T25 | 1405-1408 | Phenotype | denotes | IPA | http://purl.obolibrary.org/obo/HP_0020103 |
| T26 | 1739-1744 | Phenotype | denotes | fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T27 | 1749-1761 | Phenotype | denotes | leukocytosis | http://purl.obolibrary.org/obo/HP_0001974 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T40 | 0-132 | Sentence | denotes | A total of seven patients with COVID‐19 who had one or more positive respiratory cultures for Aspergillus fumigatus were identified. |
| T41 | 133-217 | Sentence | denotes | According to the AspICU algorithm, 7 four patients were classified as putative IPA. |
| T42 | 218-515 | Sentence | denotes | None of the patients had European Organization for Research and Treatment of Cancer/ Invasive Fungal Infections Cooperative Group and the National Institute of Allergy and Infectious Diseases Mycoses Study Group (EORTC/MSG) host factors, including neutropenia and prolonged use of corticosteroids. |
| T43 | 516-618 | Sentence | denotes | Only one patient had a pre‐existing lung disease (chronic obstructive pulmonary disease in Patient 1). |
| T44 | 619-933 | Sentence | denotes | All four patients had compatible signs (fever refractory to at least 3 days of appropriate therapy or worsening respiratory insufficiency despite appropriate antibiotic therapy and ventilatory support), host factor (glucocorticoid treatment with prednisone equivalent > 20 mg/d) and abnormal radiographic findings. |
| T45 | 934-1148 | Sentence | denotes | Radiographic abnormalities included worsening infiltrates (Patient 1), opacities with dense consolidations (Patient 2), cavitary pneumonia (Patient 3) and diffuse interstitial and patchy hazy opacities (Patient 4). |
| T46 | 1149-1258 | Sentence | denotes | The remaining three patients were classified as having colonisation as they lacked compatible clinical signs. |
| T47 | 1259-1349 | Sentence | denotes | For those three patients, subsequent clinical deterioration was explained by other causes. |
| T48 | 1350-1430 | Sentence | denotes | Clinical characteristics of the patients with putative IPA are shown in Table 1. |
| T49 | 1431-1459 | Sentence | denotes | The median age was 79 years. |
| T50 | 1460-1594 | Sentence | denotes | All experienced worsening respiratory status leading to invasive mechanical ventilation before the isolation of Aspergillus fumigatus. |
| T51 | 1595-1671 | Sentence | denotes | The patients had been mechanically ventilated for a mean of 6.8 days (range: |
| T52 | 1672-1712 | Sentence | denotes | 1‐14 days) before Aspergillus isolation. |
| T53 | 1713-1818 | Sentence | denotes | At Aspergillus isolation, fever and leukocytosis were present in one and all four patients, respectively. |
| T54 | 1819-1891 | Sentence | denotes | Serum galactomannan level was positive for only one patient (Patient 2). |
| T55 | 1892-1960 | Sentence | denotes | All patients received concomitant broad‐spectrum antibiotic therapy. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 159 | 17-25 | Species | denotes | patients | Tax:9606 |
| 160 | 94-115 | Species | denotes | Aspergillus fumigatus | Tax:746128 |
| 161 | 176-184 | Species | denotes | patients | Tax:9606 |
| 162 | 230-238 | Species | denotes | patients | Tax:9606 |
| 163 | 525-532 | Species | denotes | patient | Tax:9606 |
| 164 | 628-636 | Species | denotes | patients | Tax:9606 |
| 165 | 1169-1177 | Species | denotes | patients | Tax:9606 |
| 166 | 1275-1283 | Species | denotes | patients | Tax:9606 |
| 167 | 1382-1390 | Species | denotes | patients | Tax:9606 |
| 168 | 1572-1593 | Species | denotes | Aspergillus fumigatus | Tax:746128 |
| 169 | 1599-1607 | Species | denotes | patients | Tax:9606 |
| 170 | 1871-1878 | Species | denotes | patient | Tax:9606 |
| 171 | 1896-1904 | Species | denotes | patients | Tax:9606 |
| 172 | 1690-1701 | Species | denotes | Aspergillus | Tax:746128 |
| 173 | 1716-1727 | Species | denotes | Aspergillus | Tax:746128 |
| 174 | 1795-1803 | Species | denotes | patients | Tax:9606 |
| 175 | 865-875 | Chemical | denotes | prednisone | MESH:D011241 |
| 176 | 1825-1838 | Chemical | denotes | galactomannan | MESH:C012990 |
| 177 | 31-39 | Disease | denotes | COVID‐19 | MESH:C000657245 |
| 178 | 295-301 | Disease | denotes | Cancer | MESH:D009369 |
| 179 | 303-329 | Disease | denotes | Invasive Fungal Infections | MESH:D000072742 |
| 180 | 378-385 | Disease | denotes | Allergy | MESH:D004342 |
| 181 | 390-409 | Disease | denotes | Infectious Diseases | MESH:D003141 |
| 182 | 466-477 | Disease | denotes | neutropenia | MESH:D009503 |
| 183 | 552-564 | Disease | denotes | lung disease | MESH:D008171 |
| 184 | 566-603 | Disease | denotes | chronic obstructive pulmonary disease | MESH:D029424 |
| 185 | 659-664 | Disease | denotes | fever | MESH:D005334 |
| 186 | 731-756 | Disease | denotes | respiratory insufficiency | MESH:D012131 |
| 187 | 1063-1072 | Disease | denotes | pneumonia | MESH:D011014 |
| 188 | 1739-1744 | Disease | denotes | fever | MESH:D005334 |
| 189 | 1749-1761 | Disease | denotes | leukocytosis | MESH:D007964 |