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PMC:7219429 / 25156-26385 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T156 277-284 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T157 423-430 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T158 431-442 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T159 551-562 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T160 655-667 Body_part denotes gangliosides http://purl.org/sig/ont/fma/fma82816
T161 845-861 Body_part denotes oligosaccharides http://purl.org/sig/ont/fma/fma82742
T162 908-920 Body_part denotes gangliosides http://purl.org/sig/ont/fma/fma82816
T163 1009-1021 Body_part denotes gangliosides http://purl.org/sig/ont/fma/fma82816
T164 1134-1146 Body_part denotes gangliosides http://purl.org/sig/ont/fma/fma82816
T165 1206-1211 Body_part denotes lipid http://purl.org/sig/ont/fma/fma67264

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T237 72-77 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T238 211-212 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T239 259-261 http://purl.obolibrary.org/obo/CLO_0007622 denotes MD
T240 579-587 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T241 668-671 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T242 672-673 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T243 1025-1033 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T244 1075-1077 http://purl.obolibrary.org/obo/CLO_0007622 denotes MD
T245 1204-1205 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T477 121-130 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T478 154-157 Chemical denotes ATM http://purl.obolibrary.org/obo/CHEBI_2955
T479 259-261 Chemical denotes MD http://purl.obolibrary.org/obo/CHEBI_74699
T480 277-284 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T481 285-291 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T482 423-430 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T483 431-442 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T484 514-519 Chemical denotes water http://purl.obolibrary.org/obo/CHEBI_15377
T485 528-538 Chemical denotes saccharide http://purl.obolibrary.org/obo/CHEBI_16646
T486 551-562 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T487 597-605 Chemical denotes ceramide http://purl.obolibrary.org/obo/CHEBI_17761|http://purl.obolibrary.org/obo/CHEBI_52639
T489 636-644 Chemical denotes ceramide http://purl.obolibrary.org/obo/CHEBI_17761|http://purl.obolibrary.org/obo/CHEBI_52639
T491 655-667 Chemical denotes gangliosides http://purl.obolibrary.org/obo/CHEBI_28892
T492 695-705 Chemical denotes saccharide http://purl.obolibrary.org/obo/CHEBI_16646
T493 845-861 Chemical denotes oligosaccharides http://purl.obolibrary.org/obo/CHEBI_50699
T494 908-920 Chemical denotes gangliosides http://purl.obolibrary.org/obo/CHEBI_28892
T495 1009-1021 Chemical denotes gangliosides http://purl.obolibrary.org/obo/CHEBI_28892
T496 1075-1077 Chemical denotes MD http://purl.obolibrary.org/obo/CHEBI_74699
T497 1134-1146 Chemical denotes gangliosides http://purl.obolibrary.org/obo/CHEBI_28892
T498 1161-1172 Chemical denotes cholesterol http://purl.obolibrary.org/obo/CHEBI_16113
T499 1177-1190 Chemical denotes sphingomyelin http://purl.obolibrary.org/obo/CHEBI_17636|http://purl.obolibrary.org/obo/CHEBI_64583
T501 1206-1211 Chemical denotes lipid http://purl.obolibrary.org/obo/CHEBI_18059

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T5 72-95 http://purl.obolibrary.org/obo/GO_0019048 denotes virus-host interactions

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T186 0-184 Sentence denotes In this study, molecular modelling approaches specifically dedicated to virus-host interactions were used to unravel the antiviral mechanism of action of ATM and CLQ-OH in combination.
T187 185-349 Sentence denotes The study method included a first round of molecular docking, followed by MD simulations of protein-ligand interactions to assess the robustness of each model [25].
T188 350-616 Sentence denotes Such computer-assisted simulations are particularly helpful for studying protein-ganglioside interactions as crystallographic approaches are usually limited to the water-soluble saccharide part of the ganglioside, neglecting the membrane embedded-ceramide part [31].
T189 617-814 Sentence denotes Unfortunately, the ceramide moiety of gangliosides has a marked effect on the saccharide part with which it interacts, resulting in significant restriction of its conformational possibilities [32].
T190 815-921 Sentence denotes Therefore, data obtained with oligosaccharides cannot be systematically transposed to intact gangliosides.
T191 922-1070 Sentence denotes Molecular modelling approaches circumvented this difficulty and enabled study of whole gangliosides in membrane-compatible conformations [16,32,33].
T192 1071-1229 Sentence denotes The MD simulations performed in the present study were done on gangliosides surrounded by cholesterol and sphingomyelin, which mimic a lipid raft environment.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
696 162-168 Chemical denotes CLQ-OH
697 431-442 Chemical denotes ganglioside MESH:D005732
698 514-519 Chemical denotes water MESH:D014867
699 528-538 Chemical denotes saccharide MESH:D002241
700 551-562 Chemical denotes ganglioside MESH:D005732
701 597-605 Chemical denotes ceramide MESH:D002518
702 636-644 Chemical denotes ceramide MESH:D002518
703 655-667 Chemical denotes gangliosides MESH:D005732
704 695-705 Chemical denotes saccharide MESH:D002241
705 845-861 Chemical denotes oligosaccharides MESH:D009844
706 908-920 Chemical denotes gangliosides MESH:D005732
707 1009-1021 Chemical denotes gangliosides MESH:D005732
708 1134-1146 Chemical denotes gangliosides MESH:D005732
709 1161-1172 Chemical denotes cholesterol MESH:D002784
710 1177-1190 Chemical denotes sphingomyelin MESH:D013109
711 1206-1211 Chemical denotes lipid MESH:D008055

2_test

Id Subject Object Predicate Lexical cue
32405156-30236283-48151027 345-347 30236283 denotes 25
32405156-23807078-48151028 612-614 23807078 denotes 31
32405156-23772214-48151029 810-812 23772214 denotes 32
32405156-31431523-48151030 1060-1062 31431523 denotes 16
32405156-23772214-48151031 1063-1065 23772214 denotes 32
32405156-27352802-48151032 1066-1068 27352802 denotes 33
T72401 345-347 30236283 denotes 25
T44542 612-614 23807078 denotes 31
T20321 810-812 23772214 denotes 32
T12506 1060-1062 31431523 denotes 16
T69993 1063-1065 23772214 denotes 32
T86224 1066-1068 27352802 denotes 33