PMC:7127386 / 4289-6209
Annnotations
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 169 | 0-10 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 170 | 18-25 | Species | denotes | BetaCoV | Tax:694002 |
| 171 | 136-143 | Species | denotes | patient | Tax:9606 |
| 172 | 503-509 | Species | denotes | stocks | Tax:3724 |
| 173 | 1118-1128 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 174 | 303-307 | Chemical | denotes | DMEM | |
| 175 | 336-343 | Chemical | denotes | glucose | MESH:D005947 |
| 176 | 354-369 | Chemical | denotes | sodium pyruvate | |
| 177 | 391-401 | Chemical | denotes | Penicillin | MESH:D010406 |
| 178 | 402-414 | Chemical | denotes | Streptomycin | MESH:D013307 |
| 179 | 426-431 | Chemical | denotes | HEPES | MESH:D006531 |
| 180 | 541-551 | Chemical | denotes | remdesivir | MESH:C000606551 |
| 181 | 749-758 | Chemical | denotes | lopinavir | MESH:D061466 |
| 182 | 785-790 | Chemical | denotes | water | MESH:D014867 |
| 183 | 905-928 | Chemical | denotes | Oseltamivir carboxylate | MESH:C535162 |
| 184 | 939-944 | Chemical | denotes | water | MESH:D014867 |
| 185 | 127-135 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 186 | 286-295 | Disease | denotes | infection | MESH:D007239 |
| 187 | 1072-1081 | Disease | denotes | infection | MESH:D007239 |
| 188 | 1105-1114 | Disease | denotes | infection | MESH:D007239 |
| 189 | 1320-1329 | Disease | denotes | infection | MESH:D007239 |
| 190 | 168-170 | CellLine | denotes | E6 | CVCL:4582 |
| 191 | 274-276 | CellLine | denotes | E6 | CVCL:4582 |
| 192 | 1020-1022 | CellLine | denotes | E6 | CVCL:4582 |
| 193 | 1843-1845 | CellLine | denotes | E6 | CVCL:4582 |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T6 | 75-86 | Body_part | denotes | nasopharynx | http://purl.org/sig/ont/fma/fma54878 |
| T7 | 100-106 | Body_part | denotes | throat | http://purl.org/sig/ont/fma/fma228738 |
| T8 | 171-176 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T9 | 277-282 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T10 | 336-343 | Body_part | denotes | glucose | http://purl.org/sig/ont/fma/fma82743 |
| T11 | 1023-1028 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T12 | 1295-1300 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T13 | 1846-1851 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T14 | 1889-1893 | Body_part | denotes | Cell | http://purl.org/sig/ont/fma/fma68646 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T1 | 75-86 | Body_part | denotes | nasopharynx | http://purl.obolibrary.org/obo/UBERON_0001728 |
| T2 | 100-106 | Body_part | denotes | throat | http://purl.obolibrary.org/obo/UBERON_0000341 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T23 | 0-8 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T24 | 127-135 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T25 | 286-295 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T26 | 1072-1081 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T27 | 1105-1114 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T28 | 1118-1126 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T29 | 1320-1329 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T19 | 11-16 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T20 | 115-116 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T21 | 163-176 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T22 | 200-205 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T23 | 269-282 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T24 | 1015-1028 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T25 | 1129-1134 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T26 | 1195-1200 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T27 | 1295-1300 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T28 | 1372-1374 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T29 | 1513-1518 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T30 | 1838-1851 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T31 | 1889-1893 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | Cell |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T60 | 334-343 | Chemical | denotes | D-glucose | http://purl.obolibrary.org/obo/CHEBI_17634|http://purl.obolibrary.org/obo/CHEBI_4167|http://purl.obolibrary.org/obo/CHEBI_42758 |
| T63 | 336-343 | Chemical | denotes | glucose | http://purl.obolibrary.org/obo/CHEBI_17234 |
| T64 | 354-369 | Chemical | denotes | sodium pyruvate | http://purl.obolibrary.org/obo/CHEBI_50144 |
| T65 | 354-360 | Chemical | denotes | sodium | http://purl.obolibrary.org/obo/CHEBI_26708 |
| T66 | 361-369 | Chemical | denotes | pyruvate | http://purl.obolibrary.org/obo/CHEBI_15361 |
| T67 | 391-401 | Chemical | denotes | Penicillin | http://purl.obolibrary.org/obo/CHEBI_17334 |
| T68 | 426-431 | Chemical | denotes | HEPES | http://purl.obolibrary.org/obo/CHEBI_46756 |
| T69 | 529-533 | Chemical | denotes | DMSO | http://purl.obolibrary.org/obo/CHEBI_28262 |
| T70 | 541-551 | Chemical | denotes | remdesivir | http://purl.obolibrary.org/obo/CHEBI_145994 |
| T71 | 560-571 | Chemical | denotes | favipiravir | http://purl.obolibrary.org/obo/CHEBI_134722 |
| T72 | 593-602 | Chemical | denotes | tenofovir | http://purl.obolibrary.org/obo/CHEBI_134504|http://purl.obolibrary.org/obo/CHEBI_63625|http://purl.obolibrary.org/obo/CHEBI_63716 |
| T75 | 610-631 | Chemical | denotes | fludarabine phosphate | http://purl.obolibrary.org/obo/CHEBI_63599 |
| T76 | 622-631 | Chemical | denotes | phosphate | http://purl.obolibrary.org/obo/CHEBI_18367|http://purl.obolibrary.org/obo/CHEBI_26020|http://purl.obolibrary.org/obo/CHEBI_35780|http://purl.obolibrary.org/obo/CHEBI_43474 |
| T80 | 656-684 | Chemical | denotes | chlorpromazine hydrochloride | http://purl.obolibrary.org/obo/CHEBI_3649 |
| T81 | 656-670 | Chemical | denotes | chlorpromazine | http://purl.obolibrary.org/obo/CHEBI_3647 |
| T82 | 671-684 | Chemical | denotes | hydrochloride | http://purl.obolibrary.org/obo/CHEBI_36807 |
| T83 | 691-702 | Chemical | denotes | dalbavancin | http://purl.obolibrary.org/obo/CHEBI_82721 |
| T84 | 703-716 | Chemical | denotes | hydrochloride | http://purl.obolibrary.org/obo/CHEBI_36807 |
| T85 | 749-758 | Chemical | denotes | lopinavir | http://purl.obolibrary.org/obo/CHEBI_31781 |
| T86 | 766-775 | Chemical | denotes | ritonavir | http://purl.obolibrary.org/obo/CHEBI_45409 |
| T87 | 785-790 | Chemical | denotes | water | http://purl.obolibrary.org/obo/CHEBI_15377 |
| T88 | 797-804 | Chemical | denotes | emetine | http://purl.obolibrary.org/obo/CHEBI_4781 |
| T89 | 840-853 | Chemical | denotes | hydrochloride | http://purl.obolibrary.org/obo/CHEBI_36807 |
| T90 | 861-870 | Chemical | denotes | ribavirin | http://purl.obolibrary.org/obo/CHEBI_63580 |
| T91 | 879-902 | Chemical | denotes | oritavancin diphosphate | http://purl.obolibrary.org/obo/CHEBI_83305 |
| T92 | 879-890 | Chemical | denotes | oritavancin | http://purl.obolibrary.org/obo/CHEBI_82699 |
| T93 | 891-902 | Chemical | denotes | diphosphate | http://purl.obolibrary.org/obo/CHEBI_18361|http://purl.obolibrary.org/obo/CHEBI_33019 |
| T95 | 905-928 | Chemical | denotes | Oseltamivir carboxylate | http://purl.obolibrary.org/obo/CHEBI_73139 |
| T96 | 905-916 | Chemical | denotes | Oseltamivir | http://purl.obolibrary.org/obo/CHEBI_7798 |
| T97 | 939-944 | Chemical | denotes | water | http://purl.obolibrary.org/obo/CHEBI_15377 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T3 | 1760-1785 | http://purl.obolibrary.org/obo/GO_1903901 | denotes | inhibit viral replication |
| T4 | 1768-1785 | http://purl.obolibrary.org/obo/GO_0019079 | denotes | viral replication |
| T5 | 1768-1785 | http://purl.obolibrary.org/obo/GO_0019058 | denotes | viral replication |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T25 | 0-193 | Sentence | denotes | SARS-CoV-2 virus, BetaCoV/Hong Kong/VM20001061/2020, was isolated from the nasopharynx aspirate and throat swab of a confirmed COVID-19 patient in Hong Kong using Vero E6 cells (ATCC CRL-1586). |
| T26 | 194-433 | Sentence | denotes | Stock virus (107.25 TCID50/mL) was prepared after three serial passages in Vero E6 cells in infection media (DMEM supplemented with 4.5 g/L D-glucose, 100 mg/L sodium pyruvate, 2% FBS, 100,000 U/L Penicillin-Streptomycin, and 25 mM HEPES). |
| T27 | 434-904 | Sentence | denotes | Compounds were sourced from MedChemExpress and Sigma-Aldrich and the stocks were prepared with DMSO (50 mM remdesivir, 100 mM favipiravir, 10 mM R-1479, 10 mM tenofovir, 10 mM fludarabine phosphate, 10 mM baloxavir, 10 mM chlorpromazine hydrochloride, 5 mM dalbavancin hydrochloride, 10 mM homoharringtonine, 10 mM lopinavir, 10 mM ritonavir) or with water (5 mM emetine dihydrochloride, 10 mM galidesivir hydrochloride, 50 mM ribavirin, 2.5 mM oritavancin diphosphate). |
| T28 | 905-968 | Sentence | denotes | Oseltamivir carboxylate (10 mM in water) was provided by Roche. |
| T29 | 969-1149 | Sentence | denotes | To evaluate the effect of compounds in vitro, Vero E6 cells were pre-treated with compounds diluted in infection media for 1 h prior to infection by SARS-CoV-2 virus at MOI = 0.02. |
| T30 | 1150-1243 | Sentence | denotes | Antiviral compounds were maintained with the virus inoculum during the 2-h incubation period. |
| T31 | 1244-1365 | Sentence | denotes | The inoculum was removed after incubation, and the cells were overlaid with infection media containing diluted compounds. |
| T32 | 1366-1589 | Sentence | denotes | After 48 h incubation at 37 °C, supernatants were collected to quantify viral loads by TCID50 assay or quantitative real-time RT-PCR (TaqMan™ Fast Virus 1-Step Master Mix) following the methods described (Chu et al., 2020). |
| T33 | 1590-1786 | Sentence | denotes | Four-parameter logistic regression (GraphPad Prism) was used to fit the dose-response curves and determined the 50% effective concentrations (EC50) of the compounds that inhibit viral replication. |
| T34 | 1787-1920 | Sentence | denotes | Cytotoxicty of selected compounds was evaluated in Vero E6 cells using the CellTiter-Glo® Luminescent Cell Viability Assay (Promega). |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T109 | 0-10 | SP_7 | denotes | SARS-CoV-2 |
| T110 | 11-16 | NCBITaxon:10239 | denotes | virus |
| T111 | 75-86 | UBERON:0001728 | denotes | nasopharynx |
| T112 | 100-106 | UBERON:0000341 | denotes | throat |
| T113 | 127-135 | SP_7 | denotes | COVID-19 |
| T114 | 163-167 | CL_6 | denotes | Vero |
| T115 | 200-205 | NCBITaxon:10239 | denotes | virus |
| T116 | 269-273 | CL_6 | denotes | Vero |
| T117 | 334-343 | CHEBI:17634;CHEBI:17634 | denotes | D-glucose |
| T118 | 354-369 | CHEBI:50144;CHEBI:50144 | denotes | sodium pyruvate |
| T119 | 391-401 | CHEBI:17334;CHEBI:17334 | denotes | Penicillin |
| T120 | 402-414 | CHEBI:17076;CHEBI:17076 | denotes | Streptomycin |
| T121 | 426-431 | CHEBI:46756;CHEBI:46756 | denotes | HEPES |
| T122 | 529-533 | CHEBI:51231;CHEBI:51231 | denotes | DMSO |
| T123 | 541-551 | DG_28 | denotes | remdesivir |
| T124 | 560-571 | CHEBI:119915;CHEBI:119915;DG_17;NCBITaxon:31032 | denotes | favipiravir |
| T125 | 593-602 | CHEBI:50694;CHEBI:50694 | denotes | tenofovir |
| T126 | 610-631 | CHEBI:63599;CHEBI:63599 | denotes | fludarabine phosphate |
| T127 | 639-648 | CHEBI:3213;CHEBI:3213;NCBITaxon:10442 | denotes | baloxavir |
| T128 | 656-684 | CHEBI:3649;CHEBI:3649 | denotes | chlorpromazine hydrochloride |
| T129 | 691-702 | CHEBI:82721;CHEBI:82721 | denotes | dalbavancin |
| T130 | 703-716 | CHEBI:36807;CHEBI:36807 | denotes | hydrochloride |
| T131 | 749-758 | CHEBI:31781;CHEBI:31781;DG_23 | denotes | lopinavir |
| T132 | 766-775 | CHEBI:45409;CHEBI:45409;DG_30 | denotes | ritonavir |
| T133 | 785-790 | CHEBI:15377;CHEBI:15377 | denotes | water |
| T134 | 797-804 | CHEBI:4781;CHEBI:4781 | denotes | emetine |
| T135 | 805-820 | CHEBI:50488;CHEBI:50488 | denotes | dihydrochloride |
| T136 | 828-839 | DG_19 | denotes | galidesivir |
| T137 | 840-853 | CHEBI:36807;CHEBI:36807 | denotes | hydrochloride |
| T138 | 861-870 | CHEBI:63580;CHEBI:63580;DG_29 | denotes | ribavirin |
| T139 | 879-890 | CHEBI:82699;CHEBI:82699 | denotes | oritavancin |
| T140 | 905-916 | CHEBI:7798;CHEBI:7798 | denotes | Oseltamivir |
| T141 | 939-944 | CHEBI:15377;CHEBI:15377 | denotes | water |
| T142 | 995-1004 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T143 | 1015-1019 | CL_6 | denotes | Vero |
| T144 | 1051-1060 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T145 | 1118-1128 | SP_7 | denotes | SARS-CoV-2 |
| T146 | 1129-1134 | NCBITaxon:10239 | denotes | virus |
| T147 | 1160-1169 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T148 | 1195-1200 | NCBITaxon:10239 | denotes | virus |
| T149 | 1355-1364 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T150 | 1438-1443 | NCBITaxon:10239 | denotes | viral |
| T151 | 1533-1536 | CHEBI:60004;CHEBI:60004 | denotes | Mix |
| T152 | 1745-1754 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T153 | 1768-1773 | NCBITaxon:10239;GO:0006260 | denotes | viral |
| T154 | 1774-1785 | GO:0006260 | denotes | replication |
| T155 | 1811-1820 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T156 | 1838-1842 | CL_6 | denotes | Vero |
| T51394 | 50-59 | CHEBI:36357;CHEBI:36357 | denotes | 0, was is |
| T4039 | 71-81 | DG_28 | denotes | the nasoph |
| T15138 | 83-92 | CHEBI:31781;CHEBI:31781;DG_23 | denotes | ynx aspir |
| T51669 | 117-124 | CHEBI:4781;CHEBI:4781 | denotes | confirm |
| T58177 | 125-140 | CHEBI:50488;CHEBI:50488 | denotes | d COVID-19 pati |
| T19301 | 163-173 | SP_7 | denotes | Vero E6 ce |
| T37435 | 174-185 | GO:0006260 | denotes | ls (ATCC CR |
| T65481 | 189-193 | CL_6 | denotes | 86). |
| T20928 | 280-289 | CHEBI:36357;CHEBI:36357 | denotes | ls in inf |
| T40645 | 335-344 | CHEBI:63580;CHEBI:63580;DG_29 | denotes | -glucose, |
| T63738 | 346-356 | CHEBI:119915;CHEBI:119915;DG_17;NCBITaxon:31032 | denotes | 00 mg/L so |
| T87956 | 358-369 | CHEBI:7798;CHEBI:7798 | denotes | um pyruvate |
| T21919 | 374-383 | CHEBI:3213;CHEBI:3213;NCBITaxon:10442 | denotes | FBS, 100, |
| T55558 | 432-442 | SP_7 | denotes | . Compound |
| T14223 | 443-448 | NCBITaxon:10239 | denotes | were |
| T47691 | 504-514 | DG_28 | denotes | tocks were |
| T481 | 521-522 | CHEBI:17865;CHEBI:17865 | denotes | e |
| T933 | 522-523 | CHEBI:50217;CHEBI:50217 | denotes | d |
| T48640 | 523-528 | CHEBI:48819;CHEBI:48819 | denotes | with |
| T76259 | 541-550 | CHEBI:22260;CHEBI:22260;NCBITaxon:10508 | denotes | remdesivi |
| T96701 | 592-597 | SP_6;NCBITaxon:9606 | denotes | teno |
| T77315 | 598-611 | NCBITaxon:11118 | denotes | ovir, 10 mM f |
| T62577 | 613-617 | NCBITaxon:10359 | denotes | dara |
| T40572 | 627-631 | NCBITaxon:10359 | denotes | hate |
| T50277 | 638-646 | SP_10 | denotes | baloxav |
| T73620 | 648-656 | SP_9 | denotes | , 10 mM |
| T4950 | 662-672 | SP_7 | denotes | romazine h |
| T80102 | 796-806 | SP_7 | denotes | emetine d |
| T5072 | 830-835 | NCBITaxon:10239 | denotes | lides |
| T15145 | 927-937 | DG_28 | denotes | e (10 mM i |
| T10448 | 960-970 | SP_7 | denotes | y Roche. T |
| T83644 | 971-976 | NCBITaxon:10239 | denotes | eval |
| T64090 | 1019-1024 | NCBITaxon:10239 | denotes | E6 c |
| T4487 | 1075-1080 | NCBITaxon:10239 | denotes | ectio |
| T17071 | 1129-1139 | DG_28 | denotes | virus at M |
| T96477 | 1290-1295 | PR:000000125 | denotes | the |
| T1195 | 1301-1306 | NCBITaxon:39107 | denotes | were |
| T40045 | 1307-1316 | NCBITaxon:9606 | denotes | verlaid w |
| T96720 | 1317-1322 | NCBITaxon:10239 | denotes | th in |
| T66189 | 1377-1387 | DG_28 | denotes | incubation |
| T25830 | 1519-1529 | SP_7 | denotes | 1-Step Mas |
| T29703 | 1623-1633 | DG_28 | denotes | n (GraphPa |
| T57743 | 1641-1650 | CHEBI:22260;CHEBI:22260 | denotes | was used |
| T34401 | 1662-1673 | DG_19 | denotes | dose-respon |
| T4604 | 1689-1710 | CHEBI:63599;CHEBI:63599 | denotes | termined the 50% effe |
| T17962 | 1715-1724 | CHEBI:60783;CHEBI:60783 | denotes | concentr |
| T44260 | 1736-1746 | DG_17;NCBITaxon:31032 | denotes | ) of the c |
| T87537 | 1748-1757 | DG_29 | denotes | pounds th |
| T38687 | 1783-1788 | NCBITaxon:10239;GO:0006260 | denotes | on. C |
| T88567 | 1789-1801 | GO:0006260 | denotes | totoxicty of |
| T50657 | 1835-1844 | CHEBI:60783;CHEBI:60783 | denotes | in Vero E |
| T13669 | 1863-1870 | GO:0008152 | denotes | ellTite |