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PMC:7346000 / 14892-16378 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T46 184-190 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T47 1437-1460 Body_part denotes upper respiratory tract http://purl.org/sig/ont/fma/fma45661

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T13 184-190 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T14 1437-1460 Body_part denotes upper respiratory tract http://purl.obolibrary.org/obo/UBERON_0001557
T15 1443-1460 Body_part denotes respiratory tract http://purl.obolibrary.org/obo/UBERON_0000065

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
455 88-96 Species denotes patients Tax:9606
456 171-179 Species denotes patients Tax:9606
457 363-371 Species denotes patients Tax:9606
458 393-401 Species denotes patients Tax:9606
459 565-573 Species denotes patients Tax:9606
460 670-678 Species denotes patients Tax:9606
461 1279-1287 Species denotes patients Tax:9606
462 50-61 Species denotes Aspergillus Tax:746128
463 229-240 Species denotes Aspergillus Tax:746128
464 1405-1416 Species denotes Aspergillus Tax:746128
465 1464-1475 Species denotes Aspergillus Tax:746128
466 1097-1110 Chemical denotes galactomannan MESH:C012990
467 62-72 Disease denotes infections MESH:D007239
468 79-87 Disease denotes COVID-19 MESH:C000657245
469 154-162 Disease denotes COVID-19 MESH:C000657245
470 267-292 Disease denotes Aspergillus co-infections MESH:D060085
471 377-385 Disease denotes COVID-19 MESH:C000657245
472 661-669 Disease denotes COVID-19 MESH:C000657245
473 697-714 Disease denotes fungal infections MESH:D009181
474 798-808 Disease denotes infections MESH:D007239
475 1001-1024 Disease denotes pulmonary aspergillosis MESH:D055732
476 1293-1301 Disease denotes COVID-19 MESH:C000657245
477 1476-1485 Disease denotes infection MESH:D007239

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T162 62-72 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T163 79-87 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T164 154-162 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T165 282-292 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T166 377-385 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T167 661-669 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T168 697-714 Disease denotes fungal infections http://purl.obolibrary.org/obo/MONDO_0002041
T169 791-808 Disease denotes fungal infections http://purl.obolibrary.org/obo/MONDO_0002041
T170 973-977 Disease denotes CAPA http://purl.obolibrary.org/obo/MONDO_0007163
T171 1011-1024 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T172 1293-1301 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T173 1476-1485 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T123 209-215 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T124 606-608 http://purl.obolibrary.org/obo/CLO_0054055 denotes 71
T125 650-652 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T126 683-685 http://purl.obolibrary.org/obo/CLO_0001382 denotes 48
T127 1111-1118 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T128 1183-1184 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T129 1417-1429 http://purl.obolibrary.org/obo/UBERON_0001155 denotes colonization

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T88 424-427 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T90 493-496 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T92 532-535 Chemical denotes MSG http://purl.obolibrary.org/obo/CHEBI_64220|http://purl.obolibrary.org/obo/CHEBI_64243
T94 1097-1110 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T95 1131-1135 Chemical denotes gold http://purl.obolibrary.org/obo/CHEBI_29287|http://purl.obolibrary.org/obo/CHEBI_30050
T97 1272-1275 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T2 1097-1110 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T44 424-427 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T45 493-496 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T46 1272-1275 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T78 0-97 Sentence denotes Several studies from China reported high rates of Aspergillus infections among COVID-19 patients.
T79 98-297 Sentence denotes In one study from the Jiangsu province in China, 60/257 COVID-19 (23.3%) patients had throat swab samples that tested positive for Aspergillus spp. and were reported as Aspergillus co-infections [8].
T80 298-610 Sentence denotes In another Chinese study from the Zhejiang province 8 of the 104 patients with COVID-19 (7.7%) patients were reported to have IPA although questions remain regarding criteria used for diagnosing IPA in this study (authors state EORTC/MSG criteria were used but all 8 patients seemingly lacked host factors) [71].
T81 611-746 Sentence denotes Another study from China reported that 27% of the COVID-19 patients (13/48) developed fungal infections but lacked further details [7].
T82 747-857 Sentence denotes In other reports from China, lower rates of fungal infections were reported ranging between 3.2–5% [54,55,72].
T83 858-978 Sentence denotes None of those studies have used specific definitions and standardized diagnostic algorithms to identify and define CAPA.
T84 979-1179 Sentence denotes In fact, diagnosis of pulmonary aspergillosis is challenging with culture exhibiting limited sensitivity [73,74], and galactomannan testing—the current gold standard—is rarely available in China [75].
T85 1180-1486 Sentence denotes As a result, some of these reported rates are likely an underestimate of the real burden of IPA in patients with COVID-19 requiring ICU admission, while other rates may be an overestimation due to potentially misinterpreting Aspergillus colonization in the upper respiratory tract as Aspergillus infection.

2_test

Id Subject Object Predicate Lexical cue
32599813-32503617-60095119 606-608 32503617 denotes 71
32599813-32242738-60095120 850-852 32242738 denotes 55
32599813-32311650-60095121 853-855 32311650 denotes 72
32599813-31569472-60095122 1085-1087 31569472 denotes 73
32599813-29036605-60095123 1175-1177 29036605 denotes 75