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PMC:7394275 / 2653-4968 JSONTXT

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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T45 28-34 NCBITaxon:4751 denotes fungal
T46 52-60 SP_7 denotes COVID-19
T47 147-152 NCBITaxon:4751 denotes fungi
T48 158-164 NCBITaxon:4751 denotes fungus
T49 170-176 NCBITaxon:4751 denotes fungal
T50 201-207 NCBITaxon:4751 denotes fungal
T51 248-256 SP_7 denotes COVID-19
T52 262-272 SP_7 denotes SARS-CoV-2
T53 278-287 SP_7 denotes 2019-nCoV
T54 304-315 NCBITaxon:11118 denotes coronavirus
T55 678-684 NCBITaxon:4751 denotes fungal
T56 794-802 SP_7 denotes COVID-19
T57 908-913 NCBITaxon:4751 denotes fungi
T58 976-984 SP_7 denotes COVID-19
T59 1042-1048 NCBITaxon:4751 denotes fungal
T60 1082-1093 NCBITaxon:5478 denotes Aspergillus
T61 1094-1100 NCBITaxon:5059 denotes flavus
T62 1114-1130 NCBITaxon:5478 denotes Candida glabrata
T63 1150-1152 NCBITaxon:7719 denotes C.
T64 1153-1161 NCBITaxon:8296 denotes albicans
T65 1217-1223 NCBITaxon:4751 denotes fungal
T66 1290-1301 NCBITaxon:31032 denotes . fumigatus
T67 1306-1308 NCBITaxon:7719 denotes C.
T68 1309-1317 NCBITaxon:8296 denotes albicans
T69 1409-1417 SP_7 denotes COVID-19
T70 1462-1471 NCBITaxon:2 denotes bacterial
T71 1475-1481 NCBITaxon:4751 denotes fungal
T72 1581-1591 CHEBI:67079;CHEBI:67079 denotes antifungal
T73 1722-1728 NCBITaxon:4751 denotes fungal
T74 1865-1873 SP_7 denotes COVID-19
T75 1894-1903 UBERON:0002048 denotes pulmonary
T76 2206-2214 SP_7 denotes COVID-19
T77 2245-2248 NCBITaxon:9606 denotes man
T78 2283-2291 UBERON:0003126 denotes tracheal
T90164 28-34 NCBITaxon:4751 denotes fungal
T78055 52-60 SP_7 denotes COVID-19
T56392 147-152 NCBITaxon:4751 denotes fungi
T2937 158-164 NCBITaxon:4751 denotes fungus
T7625 170-176 NCBITaxon:4751 denotes fungal
T97506 201-207 NCBITaxon:4751 denotes fungal
T76564 248-256 SP_7 denotes COVID-19
T86195 262-272 SP_7 denotes SARS-CoV-2
T83106 278-287 SP_7 denotes 2019-nCoV
T55582 304-315 NCBITaxon:11118 denotes coronavirus
T74928 678-684 NCBITaxon:4751 denotes fungal
T11317 794-802 SP_7 denotes COVID-19
T56598 908-913 NCBITaxon:4751 denotes fungi
T39068 976-984 SP_7 denotes COVID-19
T91984 1042-1048 NCBITaxon:4751 denotes fungal
T17638 1082-1093 NCBITaxon:5478 denotes Aspergillus
T7070 1094-1100 NCBITaxon:5059 denotes flavus
T19630 1114-1130 NCBITaxon:5478 denotes Candida glabrata
T48978 1150-1152 NCBITaxon:7719 denotes C.
T7397 1153-1161 NCBITaxon:8296 denotes albicans
T45290 1217-1223 NCBITaxon:4751 denotes fungal
T26007 1290-1301 NCBITaxon:31032 denotes . fumigatus
T92391 1306-1308 NCBITaxon:7719 denotes C.
T56812 1309-1317 NCBITaxon:8296 denotes albicans
T69365 1409-1417 SP_7 denotes COVID-19
T51502 1462-1471 NCBITaxon:2 denotes bacterial
T90238 1475-1481 NCBITaxon:4751 denotes fungal
T79560 1581-1591 CHEBI:67079;CHEBI:67079 denotes antifungal
T75018 1722-1728 NCBITaxon:4751 denotes fungal
T97810 1865-1873 SP_7 denotes COVID-19
T20972 1894-1903 UBERON:0002048 denotes pulmonary
T48370 2206-2214 SP_7 denotes COVID-19
T46953 2245-2248 NCBITaxon:9606 denotes man
T47229 2283-2291 UBERON:0003126 denotes tracheal

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
157 61-69 Species denotes patients Tax:9606
158 262-272 Species denotes SARS-CoV-2 Tax:2697049
159 278-287 Species denotes 2019-nCoV Tax:2697049
160 293-315 Species denotes 2019 novel coronavirus Tax:2697049
161 803-811 Species denotes patients Tax:9606
162 985-993 Species denotes patients Tax:9606
163 1082-1100 Species denotes Aspergillus flavus Tax:5059
164 1114-1130 Species denotes Candida glabrata Tax:5478
165 1150-1161 Species denotes C. albicans Tax:5476
166 1204-1212 Species denotes patients Tax:9606
167 1258-1266 Species denotes patients Tax:9606
168 1278-1287 Species denotes A. flavus Tax:5059
169 1289-1301 Species denotes A. fumigatus Tax:746128
170 1306-1317 Species denotes C. albicans Tax:5476
171 1418-1426 Species denotes patients Tax:9606
172 1554-1562 Species denotes patients Tax:9606
173 1637-1645 Species denotes patients Tax:9606
174 1671-1679 Species denotes patients Tax:9606
175 1785-1792 Species denotes patient Tax:9606
176 1983-1991 Species denotes patients Tax:9606
177 2058-2066 Species denotes patients Tax:9606
178 2098-2106 Species denotes patients Tax:9606
179 2138-2150 Species denotes A. fumigatus Tax:746128
180 2215-2223 Species denotes patients Tax:9606
181 2270-2279 Species denotes A. flavus Tax:5059
182 28-48 Disease denotes fungal co-infections MESH:D060085
183 52-60 Disease denotes COVID-19 MESH:C000657245
184 177-186 Disease denotes infection MESH:D007239
185 232-241 Disease denotes infection MESH:D007239
186 248-256 Disease denotes COVID-19 MESH:C000657245
187 685-698 Disease denotes co-infections MESH:D060085
188 794-802 Disease denotes COVID-19 MESH:C000657245
189 891-904 Disease denotes co-infections MESH:D060085
190 976-984 Disease denotes COVID-19 MESH:C000657245
191 1049-1058 Disease denotes infection MESH:D007239
192 1217-1236 Disease denotes fungal co-infection MESH:D060085
193 1243-1257 Disease denotes critically ill MESH:D016638
194 1377-1397 Disease denotes secondary infections MESH:D060085
195 1409-1417 Disease denotes COVID-19 MESH:C000657245
196 1475-1491 Disease denotes fungal infection MESH:D009181
197 1722-1741 Disease denotes fungal co-infection MESH:D060085
198 1865-1873 Disease denotes COVID-19 MESH:C000657245
199 1885-1917 Disease denotes invasive pulmonary aspergillosis MESH:D055744
200 1968-1982 Disease denotes critically ill MESH:D016638
201 2016-2020 Disease denotes ARDS MESH:D012128
202 2206-2214 Disease denotes COVID-19 MESH:C000657245
203 2256-2264 Disease denotes infected MESH:D007239

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T44 38-51 Disease denotes infections in http://purl.obolibrary.org/obo/MONDO_0005550
T45 52-60 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T46 170-186 Disease denotes fungal infection http://purl.obolibrary.org/obo/MONDO_0002041
T47 177-186 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T48 232-241 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T49 248-256 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T50 262-270 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T51 688-698 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T52 794-802 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T53 894-913 Disease denotes infections of fungi http://purl.obolibrary.org/obo/MONDO_0002041
T54 976-984 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T55 1042-1058 Disease denotes fungal infection http://purl.obolibrary.org/obo/MONDO_0002041
T56 1049-1058 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T57 1114-1130 Disease denotes Candida glabrata http://purl.obolibrary.org/obo/MONDO_0022636
T58 1227-1236 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T59 1387-1397 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T60 1409-1417 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T61 1475-1491 Disease denotes fungal infection http://purl.obolibrary.org/obo/MONDO_0002041
T62 1482-1491 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T63 1732-1741 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T64 1865-1873 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T65 1904-1917 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T66 2016-2020 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T67 2206-2214 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T16 341-343 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T17 1194-1196 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T18 1240-1242 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T19 1278-1279 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T20 1289-1290 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T21 1354-1355 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T22 1618-1620 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T23 1743-1745 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T24 1844-1845 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T25 2138-2139 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T26 2270-2271 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T6 1581-1591 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T7 1592-1600 Chemical denotes medicine http://purl.obolibrary.org/obo/CHEBI_23888
T8 1806-1816 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T9 1817-1825 Chemical denotes medicine http://purl.obolibrary.org/obo/CHEBI_23888
T10 1919-1922 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T12 2084-2087 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T18 0-377 Sentence denotes To analyze the incidence of fungal co-infections in COVID-19 patients, we searched PubMed, Scopus, Embase, and Web of Science, using the keywords “fungi” OR “fungus” OR “fungal infection” OR “invasive fungal diseases” OR “secondary infection” AND “COVID-19” OR “SARS-CoV-2” OR “2019-nCoV” OR “2019 novel coronavirus” without date (up to May 18, 2020) and language restrictions.
T19 378-476 Sentence denotes We also searched CNKI and Wanfang Data using the same terms in Chinese, with no time restrictions.
T20 477-617 Sentence denotes The title, abstract, and full text of related articles determined according to these search criteria were carefully reviewed by the authors.
T21 618-775 Sentence denotes Unfortunately, we have found very few articles reporting on fungal co-infections, not only that, some studies have not provided the details of the pathogens.
T22 776-918 Sentence denotes Even so, we found COVID-19 patients, especially severely ill ones or accompanied with immunocompromised state, had co-infections of fungi [7].
T23 919-1166 Sentence denotes In China, Chen et al. performed fungal culture on all 99 COVID-19 patients at admission and found five (5%, 5/99) cases of fungal infection, including one case of Aspergillus flavus, one case of Candida glabrata and three cases of C. albicans [8].
T24 1167-1322 Sentence denotes Yang et al. found there (3/52, 5.8%) patients had fungal co-infection in 52 critically ill patients, including A. flavus, A. fumigatus and C. albicans [5].
T25 1323-1500 Sentence denotes Other China studies have found a higher percentage of secondary infections (8–15%) in COVID-19 patients, but it is not clear whether it is bacterial or fungal infection [9, 10].
T26 1501-1747 Sentence denotes In addition, one study mentioned that 2.8% (31/1099) patients were treated with antifungal medicine, including 1.9% (18/926) non-severe patients and 7.5% (13/173) severe patients, but there was no etiological evidence of fungal co-infection [11].
T27 1748-1843 Sentence denotes Another study mentioned there was no patient treated with antifungal medicine in 149 cases [4].
T28 1844-2026 Sentence denotes A German study found COVID-19 associated invasive pulmonary aspergillosis (IPA) was found in five (26.3%) of 19 consecutive critically ill patients with moderate to severe ARDS [12].
T29 2027-2156 Sentence denotes In Netherlands, there were six patients (19.4%) presumed IPA in 31 ICU patients, of which five were identified A. fumigatus [13].
T30 2157-2315 Sentence denotes Besides, among the 5 first well-described French COVID-19 patients, an old severely ill man was co-infected with A. flavus by tracheal aspirates culture [14].

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T4 1885-1917 Phenotype denotes invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T5 1919-1922 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T6 2084-2087 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103

2_test

Id Subject Object Predicate Lexical cue
32737747-31849894-73473591 915-916 31849894 denotes 7
32737747-32007143-73473592 1163-1164 32007143 denotes 8
32737747-32598906-73473593 1319-1320 32598906 denotes 5
32737747-31986264-73473594 1493-1494 31986264 denotes 9
32737747-32253449-73473595 1496-1498 32253449 denotes 10
32737747-32220206-73473596 1743-1745 32220206 denotes 11
32737747-32731000-73473597 1840-1841 32731000 denotes 4
32737747-32339350-73473598 2022-2024 32339350 denotes 12
32737747-32687390-73473599 2152-2154 32687390 denotes 13
32737747-32224310-73473600 2311-2313 32224310 denotes 14