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PMC:7558333 / 8520-9966 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T23 248-253 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T24 613-618 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T25 1198-1203 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T26 1320-1325 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T15 248-253 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T16 613-618 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T17 1198-1203 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T18 1320-1325 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T46 47-55 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T47 107-111 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T48 719-732 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T49 867-880 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T50 1116-1124 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T51 1134-1138 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T52 1421-1423 Disease denotes IA http://purl.obolibrary.org/obo/MONDO_0000240

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T55 32-33 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T56 44-46 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T57 150-151 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T58 428-430 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T59 632-633 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T60 1198-1203 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T61 1272-1273 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T62 1320-1325 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T63 1320-1325 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T64 1367-1376 http://purl.obolibrary.org/obo/UBERON_0001155 denotes colonized
T65 1401-1402 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T11 263-265 GlycoEpitope denotes GM http://www.glycoepitope.jp/epitopes/EP0510

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T68 0-4 Sentence denotes 3.1.
T69 5-31 Sentence denotes Patient Aspergillus Status
T70 32-125 Sentence denotes A cohort of 45 COVID-19 intubated and mechanically ventilated patients for ARDS was followed.
T71 126-189 Sentence denotes Patients benefited from a systematic screening for Aspergillus.
T72 190-312 Sentence denotes Overall, 211 respiratory samples (culture and PCR) and 32 serum samples (GM detection and Aspergillus PCR) were collected.
T73 313-406 Sentence denotes The mean number of respiratory samples until patient discharge from ICU was 3.8 (median = 3).
T74 407-659 Sentence denotes We categorized these 45 patients according to the AspICU algorithm and propose two alternative classification methods presented in Table 1: the AspICU algorithm associated to PCR results in respiratory and serum samples, and a modified AspICU proposal.
T75 660-760 Sentence denotes Thirty patients did not present any biological criteria of aspergillosis with any of the algorithms.
T76 761-1076 Sentence denotes According to the AspICU classification incorporating PCR detection, 15 were classified as having putative aspergillosis because they met all criteria reported by Blot et al., i.e., compatible clinical signs, abnormal thoracic medical imaging on CT scan and positive screening for Aspergillus on respiratory samples.
T77 1077-1446 Sentence denotes However, in this particular context of COVID-19 with all ARDS patients presenting compatible clinical signs and abnormal chest CT imaging in all likelihood lacking specificity, we decided to use a modified AspICU algorithm taking into account blood markers; we classified eight patients as colonized and seven patients with a putative/probable IA (Table 1 and Table 2).

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
174 5-12 Species denotes Patient Tax:9606
175 13-24 Species denotes Aspergillus Tax:746128
183 94-102 Species denotes patients Tax:9606
184 126-134 Species denotes Patients Tax:9606
185 358-365 Species denotes patient Tax:9606
186 177-188 Species denotes Aspergillus Tax:746128
187 280-291 Species denotes Aspergillus Tax:746128
188 47-55 Disease denotes COVID-19 MESH:C000657245
189 107-111 Disease denotes ARDS MESH:D012128
200 431-439 Species denotes patients Tax:9606
201 667-675 Species denotes patients Tax:9606
202 1139-1147 Species denotes patients Tax:9606
203 1355-1363 Species denotes patients Tax:9606
204 1387-1395 Species denotes patients Tax:9606
205 1041-1052 Species denotes Aspergillus Tax:746128
206 719-732 Disease denotes aspergillosis MESH:D001228
207 867-880 Disease denotes aspergillosis MESH:D001228
208 1116-1124 Disease denotes COVID-19 MESH:C000657245
209 1134-1138 Disease denotes ARDS MESH:D012128