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PMC:7441777 / 9537-12499 JSONTXT

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LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T46 536-544 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T64 111-113 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T65 705-707 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T66 764-767 http://purl.obolibrary.org/obo/CLO_0009325 denotes TF1
T67 946-947 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T68 1085-1087 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T69 1251-1252 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T70 1394-1396 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T71 1508-1510 http://purl.obolibrary.org/obo/CLO_0054055 denotes 71
T72 1577-1579 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T73 1805-1807 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T74 2130-2132 http://purl.obolibrary.org/obo/CLO_0001302 denotes 34
T75 2144-2145 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T76 2179-2181 http://purl.obolibrary.org/obo/CLO_0001000 denotes 35
T77 2225-2227 http://purl.obolibrary.org/obo/CLO_0001313 denotes 36
T78 2478-2480 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T79 2584-2586 http://purl.obolibrary.org/obo/CLO_0001527 denotes 94
T80 2644-2646 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T81 2658-2659 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T82 2796-2798 http://purl.obolibrary.org/obo/CLO_0001382 denotes 48
T83 2939-2942 http://purl.obolibrary.org/obo/CLO_0054060 denotes 102

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T110 50-53 Chemical denotes GTP http://purl.obolibrary.org/obo/CHEBI_15996|http://purl.obolibrary.org/obo/CHEBI_37565
T112 55-65 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T113 88-99 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195
T114 450-461 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195
T115 496-499 Chemical denotes GTP http://purl.obolibrary.org/obo/CHEBI_15996|http://purl.obolibrary.org/obo/CHEBI_37565
T117 504-514 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T118 552-554 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T119 693-696 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T120 709-717 Chemical denotes Cyanidin http://purl.obolibrary.org/obo/CHEBI_27843
T121 745-753 Chemical denotes Daidzein http://purl.obolibrary.org/obo/CHEBI_28197
T122 817-824 Chemical denotes Wogonin http://purl.obolibrary.org/obo/CHEBI_10043
T123 835-845 Chemical denotes Hesperidin http://purl.obolibrary.org/obo/CHEBI_28775|http://purl.obolibrary.org/obo/CHEBI_61606
T125 858-867 Chemical denotes Phloretin http://purl.obolibrary.org/obo/CHEBI_17276
T126 878-882 Chemical denotes EGCG http://purl.obolibrary.org/obo/CHEBI_4806
T127 914-923 Chemical denotes Myricetin http://purl.obolibrary.org/obo/CHEBI_18152
T128 958-971 Chemical denotes Quercetagetin http://purl.obolibrary.org/obo/CHEBI_8695
T129 1004-1013 Chemical denotes Quercetin http://purl.obolibrary.org/obo/CHEBI_16243
T130 1025-1035 Chemical denotes Pinosylvin http://purl.obolibrary.org/obo/CHEBI_36011
T131 1046-1054 Chemical denotes Curcumin http://purl.obolibrary.org/obo/CHEBI_3962
T132 1066-1078 Chemical denotes Formononetin http://purl.obolibrary.org/obo/CHEBI_18088
T133 1117-1131 Chemical denotes Liquiritigenin http://purl.obolibrary.org/obo/CHEBI_28777
T134 1142-1150 Chemical denotes Peonidin http://purl.obolibrary.org/obo/CHEBI_75033
T135 1162-1170 Chemical denotes Prunetin http://purl.obolibrary.org/obo/CHEBI_8600
T136 1181-1188 Chemical denotes Fisetin http://purl.obolibrary.org/obo/CHEBI_42567
T137 1241-1252 Chemical denotes Biochanin A http://purl.obolibrary.org/obo/CHEBI_17574
T138 1314-1324 Chemical denotes Kaempferol http://purl.obolibrary.org/obo/CHEBI_28499
T139 1336-1345 Chemical denotes Genistein http://purl.obolibrary.org/obo/CHEBI_27514|http://purl.obolibrary.org/obo/CHEBI_28088
T141 1356-1368 Chemical denotes Scutellarein http://purl.obolibrary.org/obo/CHEBI_9062
T142 1425-1441 Chemical denotes 6-Hydroxyflavone http://purl.obolibrary.org/obo/CHEBI_34472
T143 1452-1460 Chemical denotes Purpurin http://purl.obolibrary.org/obo/CHEBI_8645
T144 1472-1477 Chemical denotes Equol http://purl.obolibrary.org/obo/CHEBI_34741
T145 1488-1500 Chemical denotes Isorhamnetin http://purl.obolibrary.org/obo/CHEBI_6052
T146 1512-1523 Chemical denotes Piceatannol http://purl.obolibrary.org/obo/CHEBI_28814
T147 1534-1542 Chemical denotes Tricetin http://purl.obolibrary.org/obo/CHEBI_507499
T148 1581-1591 Chemical denotes Gossypetin http://purl.obolibrary.org/obo/CHEBI_16400
T149 1603-1614 Chemical denotes Resveratrol http://purl.obolibrary.org/obo/CHEBI_27881|http://purl.obolibrary.org/obo/CHEBI_45713
T151 1625-1636 Chemical denotes Norathyriol http://purl.obolibrary.org/obo/CHEBI_7622
T152 1668-1678 Chemical denotes Coumestrol http://purl.obolibrary.org/obo/CHEBI_3908
T153 1708-1722 Chemical denotes Isosakuranetin http://purl.obolibrary.org/obo/CHEBI_27552
T154 1742-1746 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T155 1785-1798 Chemical denotes Pterostilbene http://purl.obolibrary.org/obo/CHEBI_8630
T156 1831-1843 Chemical denotes Ferulic acid http://purl.obolibrary.org/obo/CHEBI_17620
T157 1839-1843 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T158 1875-1887 Chemical denotes Caffeic acid http://purl.obolibrary.org/obo/CHEBI_16433|http://purl.obolibrary.org/obo/CHEBI_17395
T160 1883-1887 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T161 1898-1908 Chemical denotes Pratensein http://purl.obolibrary.org/obo/CHEBI_8359
T162 1931-1935 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T163 1946-1956 Chemical denotes Hispidulin http://purl.obolibrary.org/obo/CHEBI_75902
T164 1983-1987 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T165 1998-2007 Chemical denotes Baicalein http://purl.obolibrary.org/obo/CHEBI_2979
T166 2019-2032 Chemical denotes Gentisic acid http://purl.obolibrary.org/obo/CHEBI_17189
T167 2028-2032 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T168 2043-2051 Chemical denotes Apigenin http://purl.obolibrary.org/obo/CHEBI_18388
T169 2063-2073 Chemical denotes Pyrogallol http://purl.obolibrary.org/obo/CHEBI_16164
T170 2101-2123 Chemical denotes 4-Hydroxycinnamic acid http://purl.obolibrary.org/obo/CHEBI_32374
T171 2119-2123 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T172 2157-2172 Chemical denotes Resacetophenone http://purl.obolibrary.org/obo/CHEBI_18414
T173 2183-2191 Chemical denotes Acacetin http://purl.obolibrary.org/obo/CHEBI_15335
T174 2214-2218 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T175 2229-2241 Chemical denotes Pelargonidin http://purl.obolibrary.org/obo/CHEBI_28510
T176 2262-2266 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T177 2277-2284 Chemical denotes Irilone http://purl.obolibrary.org/obo/CHEBI_5970
T178 2313-2317 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T179 2328-2338 Chemical denotes Naringenin http://purl.obolibrary.org/obo/CHEBI_17846
T180 2350-2361 Chemical denotes Gallic acid http://purl.obolibrary.org/obo/CHEBI_30778
T181 2357-2361 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T182 2395-2416 Chemical denotes 3-Hydroxybenzoic acid http://purl.obolibrary.org/obo/CHEBI_30764
T183 2412-2416 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T184 2427-2438 Chemical denotes Kaempferide http://purl.obolibrary.org/obo/CHEBI_6099
T185 2450-2471 Chemical denotes 4-Hydroxybenzoic acid http://purl.obolibrary.org/obo/CHEBI_30763
T186 2467-2471 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T187 2482-2490 Chemical denotes Malvidin http://purl.obolibrary.org/obo/CHEBI_6674
T188 2502-2510 Chemical denotes Vanillin http://purl.obolibrary.org/obo/CHEBI_18346
T189 2521-2529 Chemical denotes Luteolin http://purl.obolibrary.org/obo/CHEBI_15864
T190 2552-2556 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T191 2567-2576 Chemical denotes Dalbergin http://purl.obolibrary.org/obo/CHEBI_4308
T192 2588-2601 Chemical denotes Vanillic acid http://purl.obolibrary.org/obo/CHEBI_30816
T193 2597-2601 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T194 2612-2618 Chemical denotes Butein http://purl.obolibrary.org/obo/CHEBI_3237
T195 2630-2637 Chemical denotes Paeonol http://purl.obolibrary.org/obo/CHEBI_69581
T196 2648-2659 Chemical denotes Biochanin A http://purl.obolibrary.org/obo/CHEBI_17574
T197 2676-2689 Chemical denotes Cinnamic acid http://purl.obolibrary.org/obo/CHEBI_27386
T198 2685-2689 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T199 2700-2706 Chemical denotes Fustin http://purl.obolibrary.org/obo/CHEBI_5202
T200 2718-2737 Chemical denotes Protocatechuic acid http://purl.obolibrary.org/obo/CHEBI_36062
T201 2733-2737 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T202 2776-2789 Chemical denotes 4-Ethylphenol http://purl.obolibrary.org/obo/CHEBI_49584
T203 2823-2831 Chemical denotes Catechol http://purl.obolibrary.org/obo/CHEBI_18135
T204 2866-2873 Chemical denotes Tyrosol http://purl.obolibrary.org/obo/CHEBI_1879
T205 2908-2911 Chemical denotes GTP http://purl.obolibrary.org/obo/CHEBI_15996|http://purl.obolibrary.org/obo/CHEBI_37565
T207 2923-2931 Chemical denotes Galangin http://purl.obolibrary.org/obo/CHEBI_5262

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
315 50-53 Chemical denotes GTP MESH:D006160
316 55-65 Chemical denotes remdesivir MESH:C000606551
317 88-99 Chemical denotes polyphenols MESH:D059808
322 728-732 Gene denotes TF2b Gene:2959
323 640-641 Gene denotes S Gene:43740568
324 590-591 Gene denotes S Gene:43740568
325 2945-2955 Chemical denotes Remdesivir MESH:C000606551
331 524-528 Gene denotes RdRp Gene:43740578
332 536-546 Species denotes SARS-CoV-2 Tax:2697049
333 450-461 Chemical denotes polyphenols MESH:D059808
334 496-499 Chemical denotes GTP MESH:D006160
335 504-514 Chemical denotes remdesivir MESH:C000606551

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T3 764-767 GlycoEpitope denotes TF1 http://www.glycoepitope.jp/epitopes/AN0049

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T73 0-6 Sentence denotes 2.1.2.
T74 8-27 Sentence denotes Ligand preparations
T75 28-240 Sentence denotes The SDF structures of GTP, remdesivir, and selected hundred polyphenols (see Table S1 in Supplementary Information) were retrieved from the PubChem database (https://pubchem.ncbi.nlm.nih.gov/) (Kim et al., 2019).
T76 241-398 Sentence denotes The compounds were converted into PDB format, and conformational energies of all the compounds were minimized by using UCSF Chimera (Pettersen et al., 2004).
T77 399-407 Sentence denotes Table 1.
T78 409-555 Sentence denotes Binding energy (kcal/mol) of the natural polyphenols along with the control compounds (GTP and remdesivir) against RdRp of the SARS-CoV-2 (PDB ID:
T79 556-589 Sentence denotes 6M71) by molecular docking study.
T80 590-592 Sentence denotes S.
T81 593-596 Sentence denotes No.
T82 598-642 Sentence denotes Compound Name Binding energy (kcal/mol) S.
T83 643-646 Sentence denotes No.
T84 648-688 Sentence denotes Compound Name Binding energy (kcal/mol)
T85 689-723 Sentence denotes 1 TF3 −9.9 52 Cyanidin −6.3
T86 724-759 Sentence denotes 2 TF2b −9.6 53 Daidzein −6.3
T87 760-795 Sentence denotes 3 TF1 −9.6 54 Glycitein −6.3
T88 796-830 Sentence denotes 4 TF2a −9.3 55 Wogonin −6.3
T89 831-873 Sentence denotes 5 Hesperidin −8.8 56 Phloretin −6.3
T90 874-909 Sentence denotes 6 EGCG −7.3 57 Catechin −6.2
T91 910-953 Sentence denotes 7 Myricetin −7.2 58 Urolithin B −6.2
T92 954-1000 Sentence denotes 8 Quercetagetin −7.0 59 Angolensin −6.2
T93 1001-1041 Sentence denotes 9 Quercetin −6.9 60 Pinosylvin −6.2
T94 1042-1084 Sentence denotes 10 Curcumin −6.9 61 Formononetin −6.2
T95 1085-1137 Sentence denotes 11 Dihydrorobinetin −6.8 62 Liquiritigenin −6.2
T96 1138-1176 Sentence denotes 12 Peonidin −6.8 63 Prunetin −6.2
T97 1177-1215 Sentence denotes 13 Fisetin −6.8 64 Alpinetin −6.2
T98 1216-1258 Sentence denotes 14 Robinetin −6.7 65 Biochanin A −6.2
T99 1259-1309 Sentence denotes 15 5-Deoxygalangin −6.7 66 Rhapontigenin −6.1
T100 1310-1351 Sentence denotes 16 Kaempferol −6.7 67 Genistein −6.1
T101 1352-1393 Sentence denotes 17 Scutellarein −6.7 68 Chrysin −6.1
T102 1394-1447 Sentence denotes 18 (-)-Epicatechin −6.7 69 6-Hydroxyflavone −6.1
T103 1448-1483 Sentence denotes 19 Purpurin −6.7 70 Equol −6.1
T104 1484-1529 Sentence denotes 20 Isorhamnetin −6.7 71 Piceatannol −6.1
T105 1530-1576 Sentence denotes 21 Tricetin −6.6 72 Isorhapontigenin −6.0
T106 1577-1620 Sentence denotes 22 Gossypetin −6.6 73 Resveratrol −5.8
T107 1621-1663 Sentence denotes 23 Norathyriol −6.6 74 Danshensu −5.7
T108 1664-1703 Sentence denotes 24 Coumestrol −6.6 75 Eugenin −5.6
T109 1704-1752 Sentence denotes 25 Isosakuranetin −6.6 76 Sinapic acid −5.5
T110 1753-1804 Sentence denotes 26 Pectolinarigenin −6.6 77 Pterostilbene −5.5
T111 1805-1849 Sentence denotes 27 Tangeritin −6.6 78 Ferulic acid −5.4
T112 1850-1893 Sentence denotes 28 Nobiletin −6.6 79 Caffeic acid −5.4
T113 1894-1941 Sentence denotes 29 Pratensein −6.6 80 Isoferulic acid −5.4
T114 1942-1993 Sentence denotes 30 Hispidulin −6.6 81 Dihydrocaffeic acid −5.4
T115 1994-2038 Sentence denotes 31 Baicalein −6.5 82 Gentisic acid −5.3
T116 2039-2079 Sentence denotes 32 Apigenin −6.5 83 Pyrogallol −5.3
T117 2080-2129 Sentence denotes 33 Morin −6.5 84 4-Hydroxycinnamic acid −5.2
T118 2130-2178 Sentence denotes 34 Urolithin A −6.5 85 Resacetophenone −5.2
T119 2179-2224 Sentence denotes 35 Acacetin −6.5 86 Salicyclic acid −5.1
T120 2225-2272 Sentence denotes 36 Pelargonidin −6.5 87 Syringic acid −5.1
T121 2273-2323 Sentence denotes 37 Irilone −6.5 88 2-Hydroxybenzoic acid −5.1
T122 2324-2367 Sentence denotes 38 Naringenin −6.5 89 Gallic acid −5.0
T123 2368-2422 Sentence denotes 39 Pinocembrin −6.5 90 3-Hydroxybenzoic acid −5.0
T124 2423-2477 Sentence denotes 40 Kaempferide −6.5 91 4-Hydroxybenzoic acid −5.0
T125 2478-2516 Sentence denotes 41 Malvidin −6.5 92 Vanillin −5.0
T126 2517-2562 Sentence denotes 42 Luteolin −6.4 93 p-Coumeric acid −4.9
T127 2563-2607 Sentence denotes 43 Dalbergin −6.4 94 Vanillic acid −4.8
T128 2608-2643 Sentence denotes 44 Butein −6.4 95 Paeonol −4.8
T129 2644-2695 Sentence denotes 45 Biochanin A (1-) −6.4 96 Cinnamic acid −4.7
T130 2696-2743 Sentence denotes 46 Fustin −6.4 97 Protocatechuic acid −4.6
T131 2744-2795 Sentence denotes 47 5-Hydroxyflavone −6.4 98 4-Ethylphenol −4.5
T132 2796-2837 Sentence denotes 48 Pinostrobin −6.4 99 Catechol −4.5
T133 2838-2879 Sentence denotes 49 Pinobanksin −6.4 100 Tyrosol −4.5
T134 2880-2918 Sentence denotes 50 Datiscetin −6.3 101 GTP −7.9
T135 2919-2962 Sentence denotes 51 Galangin −6.3 102 Remdesivir −7.7

2_test

Id Subject Object Predicate Lexical cue
32720577-30371825-56195102 234-238 30371825 denotes 2019
32720577-15264254-56195103 392-396 15264254 denotes 2004