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PMC:7346000 / 22159-25709 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T59 1850-1856 Body_part denotes kidney http://purl.org/sig/ont/fma/fma7203

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T28 1850-1856 Body_part denotes kidney http://purl.obolibrary.org/obo/UBERON_0002113

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
607 3-7 Chemical denotes CAPA
657 621-628 Gene denotes CYP2C19 Gene:1557
658 630-636 Gene denotes CYP2C9 Gene:1559
659 642-648 Gene denotes CYP3A4 Gene:1576
660 984-990 Gene denotes CYP3A4 Gene:1576
661 1348-1354 Gene denotes CYP3A4 Gene:1576
662 1746-1754 Species denotes patients Tax:9606
663 1767-1777 Species denotes SARS-CoV-2 Tax:2697049
664 2069-2087 Species denotes feline coronavirus Tax:12663
665 3204-3212 Species denotes patients Tax:9606
666 2514-2525 Species denotes Aspergillus Tax:746128
667 2649-2660 Species denotes Aspergillus Tax:746128
668 3507-3518 Species denotes Aspergillus Tax:746128
669 268-280 Chemical denotes voriconazole MESH:D065819
670 561-573 Chemical denotes voriconazole MESH:D065819
671 650-662 Chemical denotes voriconazole MESH:D065819
672 846-864 Chemical denotes hydroxychloroquine MESH:D006886
673 866-876 Chemical denotes atazanavir MESH:D000069446
674 878-897 Chemical denotes lopinavir/ritonavir MESH:C558899
675 942-952 Chemical denotes remdesivir MESH:C000606551
676 1066-1079 Chemical denotes Isavuconazole MESH:C508735
677 1094-1108 Chemical denotes amphotericin B MESH:D000666
678 1195-1207 Chemical denotes voriconazole MESH:D065819
679 1209-1222 Chemical denotes isavuconazole MESH:C508735
680 1457-1470 Chemical denotes isavuconazole MESH:C508735
681 1481-1493 Chemical denotes voriconazole MESH:D065819
682 1513-1527 Chemical denotes amphotericin B MESH:D000666
683 1876-1888 Chemical denotes itraconazole MESH:D017964
684 2013-2024 Chemical denotes cholesterol MESH:D002784
685 2181-2193 Chemical denotes itraconazole MESH:D017964
686 2339-2348 Chemical denotes triazoles MESH:D014230
687 2878-2890 Chemical denotes fosmanogepix
688 2895-2903 Chemical denotes olorofim MESH:C000626907
689 3315-3324 Chemical denotes triazoles MESH:D014230
690 3349-3363 Chemical denotes amphotericin B MESH:D000666
691 3463-3475 Chemical denotes echinocandin MESH:D054714
692 97-105 Disease denotes COVID-19 MESH:C000657245
693 236-258 Disease denotes hematologic malignancy MESH:D019337
694 483-497 Disease denotes hepatotoxicity MESH:D056486
695 816-824 Disease denotes COVID-19 MESH:C000657245
696 1300-1310 Disease denotes toxicities MESH:D064420
697 1601-1620 Disease denotes renal insufficiency MESH:D051437
698 1755-1763 Disease denotes infected MESH:D007239
699 1794-1807 Disease denotes renal tropism MESH:D007674
700 1850-1863 Disease denotes kidney injury MESH:D058186
701 1917-1939 Disease denotes invasive aspergillosis MESH:D055744
702 2246-2254 Disease denotes COVID-19 MESH:C000657245
703 2442-2464 Disease denotes invasive aspergillosis MESH:D055744
704 2988-2996 Disease denotes toxicity MESH:D064420
705 3173-3181 Disease denotes COVID-19 MESH:C000657245

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T193 3-7 Disease denotes CAPA http://purl.obolibrary.org/obo/MONDO_0007163
T194 97-105 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T195 236-258 Disease denotes hematologic malignancy http://purl.obolibrary.org/obo/MONDO_0002334|http://purl.obolibrary.org/obo/MONDO_0044881
T197 816-824 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T198 1601-1620 Disease denotes renal insufficiency http://purl.obolibrary.org/obo/MONDO_0001106
T199 1767-1775 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T200 1857-1863 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T201 1917-1939 Disease denotes invasive aspergillosis http://purl.obolibrary.org/obo/MONDO_0000240
T202 1926-1939 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T203 2246-2254 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T204 2442-2464 Disease denotes invasive aspergillosis http://purl.obolibrary.org/obo/MONDO_0000240
T205 2451-2464 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T206 3173-3181 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T185 137-138 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T186 968-969 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T187 1051-1059 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T188 1107-1108 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T189 1229-1230 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T190 1442-1443 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T191 1526-1527 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T192 1531-1532 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T193 1784-1787 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T194 1830-1831 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T195 1850-1856 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
T196 1850-1856 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney
T197 1850-1856 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney
T198 1944-1947 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T199 1985-1993 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T200 2011-2012 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T201 2067-2068 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T202 2145-2148 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T203 2497-2505 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T204 2632-2640 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T205 3362-3363 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T206 3365-3367 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T207 3490-3498 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T208 3533-3534 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T129 73-83 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T130 117-120 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T132 202-212 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T133 268-280 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T134 330-333 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T136 426-430 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T137 504-508 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T138 509-513 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T139 561-573 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T140 650-662 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T141 676-681 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888
T142 720-724 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T143 725-729 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T144 846-864 Chemical denotes hydroxychloroquine http://purl.obolibrary.org/obo/CHEBI_5801
T145 866-876 Chemical denotes atazanavir http://purl.obolibrary.org/obo/CHEBI_37924
T146 878-897 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T147 878-887 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T148 888-897 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T149 942-952 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T150 1094-1108 Chemical denotes amphotericin B http://purl.obolibrary.org/obo/CHEBI_2682
T151 1162-1165 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T153 1195-1207 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T154 1209-1222 Chemical denotes isavuconazole http://purl.obolibrary.org/obo/CHEBI_85979
T155 1400-1404 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T156 1405-1409 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T157 1457-1470 Chemical denotes isavuconazole http://purl.obolibrary.org/obo/CHEBI_85979
T158 1481-1493 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T159 1513-1527 Chemical denotes amphotericin B http://purl.obolibrary.org/obo/CHEBI_2682
T160 1686-1702 Chemical denotes antifungal agent http://purl.obolibrary.org/obo/CHEBI_35718
T161 1876-1888 Chemical denotes itraconazole http://purl.obolibrary.org/obo/CHEBI_6076
T162 1975-1984 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T163 2013-2024 Chemical denotes cholesterol http://purl.obolibrary.org/obo/CHEBI_16113
T164 2035-2044 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T165 2181-2193 Chemical denotes itraconazole http://purl.obolibrary.org/obo/CHEBI_6076
T166 2266-2269 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T168 2305-2309 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T169 2310-2314 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T170 2339-2348 Chemical denotes triazoles http://purl.obolibrary.org/obo/CHEBI_35727
T171 2376-2389 Chemical denotes echinocandins http://purl.obolibrary.org/obo/CHEBI_57248
T172 2486-2496 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T173 2579-2583 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T174 2584-2588 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T175 2733-2744 Chemical denotes antifungals http://purl.obolibrary.org/obo/CHEBI_35718
T176 2794-2804 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T177 2823-2833 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T178 2961-2965 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T179 2966-2970 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T180 3064-3075 Chemical denotes antifungals http://purl.obolibrary.org/obo/CHEBI_35718
T181 3193-3196 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T183 3315-3324 Chemical denotes triazoles http://purl.obolibrary.org/obo/CHEBI_35727
T184 3349-3363 Chemical denotes amphotericin B http://purl.obolibrary.org/obo/CHEBI_2682
T185 3393-3403 Chemical denotes antifungal http://purl.obolibrary.org/obo/CHEBI_35718
T186 3463-3475 Chemical denotes echinocandin http://purl.obolibrary.org/obo/CHEBI_57248

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T31 1005-1015 http://purl.obolibrary.org/obo/GO_0008152 denotes metabolism
T32 1041-1059 http://purl.obolibrary.org/obo/GO_0051345 denotes hydrolase activity
T33 1800-1807 http://purl.obolibrary.org/obo/GO_0009606 denotes tropism
T34 2013-2034 http://purl.obolibrary.org/obo/GO_0030301 denotes cholesterol transport
T35 2025-2034 http://purl.obolibrary.org/obo/GO_0006810 denotes transport

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T47 117-120 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T48 330-333 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T49 1162-1165 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T50 1601-1620 Phenotype denotes renal insufficiency http://purl.obolibrary.org/obo/HP_0000083
T51 2266-2269 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T52 3193-3196 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T116 0-2 Sentence denotes 6.
T117 3-34 Sentence denotes CAPA Treatment—Current Paradigm
T118 35-223 Sentence denotes While it is currently unknown whether antifungal treatment of COVID-19 associated IPA translates into a survival benefit, diagnosis should in most cases trigger early antifungal treatment.
T119 224-342 Sentence denotes Outside the hematologic malignancy setting, voriconazole remains the recommended first-line treatment for IPA [79,80].
T120 343-598 Sentence denotes However, besides its narrow therapeutic window and the requirement for therapeutic drug monitoring to ensure efficacy and prevent neuro and hepatotoxicity [81], drug–drug interactions may particularly limit the use of voriconazole in the ICU setting [82].
T121 599-759 Sentence denotes Being metabolized via CYP2C19, CYP2C9, and CYP3A4, voriconazole is among the drugs most frequently associated with major drug–drug interactions in the ICU [83].
T122 760-1065 Sentence denotes Furthermore, it may show interactions with experimental COVID-19 therapies, including hydroxychloroquine, atazanavir, lopinavir/ritonavir and last but not least—although weaker—with remdesivir, which is also a substrate for CYP3A4, although its metabolism is primarily mediated by hydrolase activity [84].
T123 1066-1182 Sentence denotes Isavuconazole and liposomal amphotericin B are the primary alternative options for treatment of IPA in the ICU [79].
T124 1183-1311 Sentence denotes Compared to voriconazole, isavuconazole shows a more favorable pharmacokinetic profile, and is associated with fewer toxicities.
T125 1312-1502 Sentence denotes However, it is also metabolized via CYP3A4 and could therefore be problematic, although drug–drug interactions are generally less a problem with isavuconazole than with voriconazole [85,86].
T126 1503-1703 Sentence denotes Liposomal amphotericin B is a broadly effective alternative treatment option, however, in the ICU renal insufficiency often complicates initiation or requires discontinuation of this antifungal agent.
T127 1704-1869 Sentence denotes This concern is particularly relevant for patients infected by SARS-CoV-2 which has shown renal tropism and been described as a frequent cause of kidney injury [87].
T128 1870-2099 Sentence denotes While itraconazole is now rarely used to treat invasive aspergillosis, it has been shown to exhibit some antiviral activity, specifically as a cholesterol transport inhibitor, and was effective in a feline coronavirus model [88].
T129 2100-2349 Sentence denotes In addition, its novel oral SUBA formulation has great bioavailability [89], and itraconazole may therefore be an alternative option for treating COVID-19 associated IPA, although it shares the problem of drug–drug interactions with other triazoles.
T130 2350-2673 Sentence denotes While currently available echinocandins are not considered first-line treatment options for invasive aspergillosis due to their limited antifungal activity against Aspergillus spp., they are generally well tolerated with limited drug–drug interactions and show at least fungistatic activity against Aspergillus hyphae [90].
T131 2674-2818 Sentence denotes Furthermore, they synergistic interactions with some other antifungals, making them an excellent choice for combination antifungal therapy [90].
T132 2819-3138 Sentence denotes New antifungal classes currently under development, namely fosmanogepix and olorofim [91], may have equal efficacy without the same burden of drug–drug interactions and toxicity, and may therefore overcome the limitations of currently available antifungals and become the preferred treatment options in the near future.
T133 3139-3550 Sentence denotes If the reported high incidence of COVID-19 associated IPA in ICU patients is confirmed in larger studies, there may be justification for prophylaxis trials, for which not only triazoles and nebulized liposomal amphotericin B [52], but also another novel antifungal currently under development, rezafungin (i.e., once weekly echinocandin with improved activity against Aspergillus spp.), may be a candidate [92].

2_test

Id Subject Object Predicate Lexical cue
32599813-27365388-60095146 335-337 27365388 denotes 79
32599813-29544767-60095147 338-340 29544767 denotes 80
32599813-23629724-60095148 499-501 23629724 denotes 81
32599813-30816967-60095149 594-596 30816967 denotes 82
32599813-26603290-60095150 755-757 26603290 denotes 83
32599813-32284951-60095151 1061-1063 32284951 denotes 84
32599813-27365388-60095152 1178-1180 27365388 denotes 79
32599813-29112326-60095153 1498-1500 29112326 denotes 86
32599813-30658691-60095154 2095-2097 30658691 denotes 88
32599813-31360992-60095155 2172-2174 31360992 denotes 89
32599813-31138565-60095156 2669-2671 31138565 denotes 90
32599813-31138565-60095157 2814-2816 31138565 denotes 90
32599813-31649174-60095158 2905-2907 31649174 denotes 91
32599813-32488446-60095159 3365-3367 32488446 denotes 52
32599813-30032217-60095160 3546-3548 30032217 denotes 92