PMC:7346000 / 25711-28345
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T60 | 1704-1711 | Body_part | denotes | trachea | http://purl.org/sig/ont/fma/fma7394 |
| T61 | 1836-1840 | Body_part | denotes | face | http://purl.org/sig/ont/fma/fma24728 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T29 | 1704-1711 | Body_part | denotes | trachea | http://purl.obolibrary.org/obo/UBERON_0003126 |
| T30 | 1716-1723 | Body_part | denotes | bronchi | http://purl.obolibrary.org/obo/UBERON_0002185 |
| T31 | 1836-1840 | Body_part | denotes | face | http://purl.obolibrary.org/obo/UBERON_0001456 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 731 | 133-155 | Species | denotes | Acinetobacter baumanii | Tax:470 |
| 732 | 758-766 | Species | denotes | patients | Tax:9606 |
| 733 | 840-861 | Species | denotes | human metapneumovirus | Tax:162145 |
| 734 | 1094-1102 | Species | denotes | patients | Tax:9606 |
| 735 | 1497-1507 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 736 | 1895-1905 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 737 | 2007-2015 | Species | denotes | patients | Tax:9606 |
| 738 | 182-193 | Species | denotes | Aspergillus | Tax:746128 |
| 739 | 651-662 | Species | denotes | Aspergillus | Tax:746128 |
| 740 | 71-97 | Disease | denotes | viral secondary infections | MESH:D001102 |
| 741 | 101-114 | Disease | denotes | co-infections | MESH:D060085 |
| 742 | 122-131 | Disease | denotes | mortality | MESH:D003643 |
| 743 | 394-407 | Disease | denotes | co-infections | MESH:D060085 |
| 744 | 503-512 | Disease | denotes | infection | MESH:D007239 |
| 745 | 743-757 | Disease | denotes | critically ill | MESH:D016638 |
| 746 | 811-815 | Disease | denotes | ARDS | MESH:D012128 |
| 747 | 822-834 | Disease | denotes | Co-infection | MESH:D060085 |
| 748 | 976-984 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 749 | 1066-1081 | Disease | denotes | viral infection | MESH:D001102 |
| 750 | 1085-1093 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 751 | 1140-1148 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 752 | 1156-1171 | Disease | denotes | viral infection | MESH:D001102 |
| 753 | 1434-1442 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 754 | 1704-1711 | Disease | denotes | trachea | MESH:C557675 |
| 755 | 1788-1817 | Disease | denotes | Aspergillus tracheobronchitis | MESH:D001228 |
| 760 | 2269-2279 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 761 | 2094-2119 | Disease | denotes | Aspergillus co-infections | MESH:D060085 |
| 762 | 2414-2424 | Disease | denotes | infections | MESH:D007239 |
| 763 | 2432-2440 | Disease | denotes | COVID-19 | MESH:C000657245 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T207 | 87-97 | Disease | denotes | infections | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T208 | 104-114 | Disease | denotes | infections | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T209 | 157-177 | Disease | denotes | Klebsiella pneumonia | http://purl.obolibrary.org/obo/MONDO_0030602 |
| T210 | 168-177 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
| T211 | 377-381 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T212 | 397-407 | Disease | denotes | infections | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T213 | 503-512 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T214 | 811-815 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T215 | 825-834 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T216 | 915-919 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T217 | 976-984 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T218 | 1066-1081 | Disease | denotes | viral infection | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T219 | 1072-1081 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T220 | 1085-1093 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T221 | 1140-1148 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T222 | 1156-1171 | Disease | denotes | viral infection | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T223 | 1162-1171 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T224 | 1434-1442 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T225 | 1497-1505 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T226 | 1800-1817 | Disease | denotes | tracheobronchitis | http://purl.obolibrary.org/obo/MONDO_0021925 |
| T227 | 1895-1903 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T228 | 2109-2119 | Disease | denotes | infections | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T229 | 2269-2277 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T230 | 2407-2424 | Disease | denotes | fungal infections | http://purl.obolibrary.org/obo/MONDO_0002041 |
| T231 | 2432-2440 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T209 | 324-326 | http://purl.obolibrary.org/obo/CLO_0001407 | denotes | 52 |
| T210 | 445-446 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T211 | 679-686 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | testing |
| T212 | 719-720 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T213 | 768-770 | http://purl.obolibrary.org/obo/CLO_0001527 | denotes | 94 |
| T214 | 840-845 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T215 | 862-865 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T216 | 985-989 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T217 | 1103-1106 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T218 | 1349-1360 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | instruments |
| T219 | 1836-1840 | http://purl.obolibrary.org/obo/UBERON_0001456 | denotes | face |
| T220 | 2442-2444 | http://purl.obolibrary.org/obo/CLO_0001527 | denotes | 94 |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T187 | 663-670 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
| T188 | 822-824 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T189 | 2613-2623 | Chemical | denotes | antifungal | http://purl.obolibrary.org/obo/CHEBI_35718 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T36 | 1066-1081 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | viral infection |
| T37 | 1156-1171 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | viral infection |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T53 | 168-177 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T134 | 0-2 | Sentence | denotes | 7. |
| T135 | 3-48 | Sentence | denotes | The Current Challenges and How to Tackle Them |
| T136 | 49-132 | Sentence | denotes | Bacterial, fungal and viral secondary infections or co-infections affect mortality. |
| T137 | 133-274 | Sentence | denotes | Acinetobacter baumanii, Klebsiella pneumonia and Aspergillus species are important nosocomial pathogens [93] complicating the disease course. |
| T138 | 275-382 | Sentence | denotes | Studies from France [51], Germany [50], Belgium [52], and the Netherlands [47], underline the role of CAPA. |
| T139 | 383-481 | Sentence | denotes | Diagnosing co-infections is complex and rapid diagnosis plays a crucial role in this setting [49]. |
| T140 | 482-650 | Sentence | denotes | Close monitoring for infection development is needed, as well as longitudinal sampling throughout the disease course using culture dependent and independent techniques. |
| T141 | 651-821 | Sentence | denotes | Aspergillus antigen and PCR testing of respiratory fluids should be a routine procedure for critically ill patients [94], specifically for those suffering from ARDS [50]. |
| T142 | 822-932 | Sentence | denotes | Co-infection with human metapneumovirus has been reported in two of five cases in the German CAPA series [50]. |
| T143 | 933-1121 | Sentence | denotes | It is unknown whether hospitals caring for COVID-19 test comprehensive respiratory pathogen panels, and to date no analysis of mixed viral infection in COVID-19 patients has been reported. |
| T144 | 1122-1259 | Sentence | denotes | In the context of COVID-19, mixed viral infection may be misinterpreted as presence of innocent bystanders and thus remain underreported. |
| T145 | 1260-1373 | Sentence | denotes | With bronchoalveolar lavage and autopsy regarded as high-risk procedures, key diagnostic instruments are lacking. |
| T146 | 1374-1532 | Sentence | denotes | Autopsy studies are key to understanding pathophysiology of COVID-19 [95] and are critically enlighten interaction between SARS-CoV-2 and different pathogens. |
| T147 | 1533-1689 | Sentence | denotes | With availability of lower respiratory samples, normally obtained by BALF, the quality of microbiological and virological work up would be greatly improved. |
| T148 | 1690-1818 | Sentence | denotes | Inspection of trachea and bronchi is achieved by bronchoscopy, which is critical to find possible Aspergillus tracheobronchitis. |
| T149 | 1819-2040 | Sentence | denotes | Thus, physicians face the dilemma of taking the hazard of aerosolization of SARS-CoV-2, risking transmission versus the endeavor of facilitating the optimal diagnosis and treatment to the patients entrusted to their care. |
| T150 | 2041-2150 | Sentence | denotes | To this day, our understanding of the true impact of Aspergillus co-infections remains frustratingly limited. |
| T151 | 2151-2290 | Sentence | denotes | Therefore, guidance on proper management of these high-risk procedures to prevent transmission and super spreading of SARS-CoV-2 is needed. |
| T152 | 2291-2510 | Sentence | denotes | The European Confederation of Medical Mycology initiated national multicenter studies aiming to explore the risk of fungal infections during COVID-19 [94] and is currently working on diagnostic and treatment algorithms. |
| T153 | 2511-2634 | Sentence | denotes | Key goals are to improve the outcome by avoiding misdiagnosis and by initiation of early and targeted antifungal treatment. |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32599813-32339350-60095161 | 310-312 | 32339350 | denotes | 50 |
| 32599813-32488446-60095162 | 324-326 | 32488446 | denotes | 52 |
| 32599813-31905234-60095163 | 768-770 | 31905234 | denotes | 94 |
| 32599813-32339350-60095164 | 817-819 | 32339350 | denotes | 50 |
| 32599813-32339350-60095165 | 928-930 | 32339350 | denotes | 50 |
| 32599813-32437596-60095166 | 1444-1446 | 32437596 | denotes | 95 |
| 32599813-31905234-60095167 | 2442-2444 | 31905234 | denotes | 94 |