PMC:7321036 / 96156-98235
Annnotations
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T198 | 340-450 | GO:0065007 | denotes | reater than those indicated, including a DMSO control. Plates were then transferred into the BSL-3 facility an |
| T199 | 1236-1415 | SO:0000855 | denotes | ound) ∗100 and the DMSO control was then set to 100% infection for analysis. The IC50 for each experiment was determined using the Prism software (GraphPad). For select inhibitors |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T691 | 36-44 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T692 | 134-139 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T693 | 681-686 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T694 | 784-789 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T695 | 831-838 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T696 | 930-935 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T697 | 955-960 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T698 | 1089-1096 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T699 | 1127-1132 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T700 | 1209-1214 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T701 | 1221-1226 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T702 | 1496-1502 | Body_part | denotes | Tissue | http://purl.org/sig/ont/fma/fma9637 |
| T703 | 1731-1736 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T704 | 1755-1760 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T705 | 1801-1806 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T706 | 1981-1985 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T29 | 1496-1502 | Body_part | denotes | Tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T370 | 0-8 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T371 | 217-226 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T372 | 463-471 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T373 | 640-649 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T374 | 1170-1179 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T375 | 1289-1298 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T376 | 1456-1466 | Disease | denotes | infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T377 | 1511-1521 | Disease | denotes | Infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T378 | 1552-1562 | Disease | denotes | infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T379 | 1608-1617 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T380 | 1655-1665 | Disease | denotes | Infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T381 | 1827-1835 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1306 | 126-139 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T1307 | 379-380 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T1308 | 616-618 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T1309 | 681-686 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1310 | 784-789 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1311 | 828-830 | http://purl.obolibrary.org/obo/CLO_0008192 | denotes | NP |
| T1312 | 900-901 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T1313 | 930-935 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1314 | 955-960 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1315 | 1086-1088 | http://purl.obolibrary.org/obo/CLO_0008192 | denotes | NP |
| T1316 | 1119-1132 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T1317 | 1209-1214 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1318 | 1221-1226 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1319 | 1594-1596 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T1320 | 1723-1736 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T1321 | 1747-1760 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T1322 | 1801-1806 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1323 | 1981-1985 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T607 | 69-79 | Chemical | denotes | inhibitors | http://purl.obolibrary.org/obo/CHEBI_35222 |
| T608 | 381-385 | Chemical | denotes | DMSO | http://purl.obolibrary.org/obo/CHEBI_28262 |
| T609 | 706-718 | Chemical | denotes | formaldehyde | http://purl.obolibrary.org/obo/CHEBI_16842 |
| T610 | 828-830 | Chemical | denotes | NP | http://purl.obolibrary.org/obo/CHEBI_50803|http://purl.obolibrary.org/obo/CHEBI_53793|http://purl.obolibrary.org/obo/CHEBI_73425 |
| T613 | 831-838 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T614 | 902-906 | Chemical | denotes | DAPI | http://purl.obolibrary.org/obo/CHEBI_51231 |
| T615 | 962-966 | Chemical | denotes | DAPI | http://purl.obolibrary.org/obo/CHEBI_51231 |
| T616 | 1086-1088 | Chemical | denotes | NP | http://purl.obolibrary.org/obo/CHEBI_50803|http://purl.obolibrary.org/obo/CHEBI_53793|http://purl.obolibrary.org/obo/CHEBI_73425 |
| T619 | 1089-1096 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T620 | 1104-1111 | Chemical | denotes | nucleus | http://purl.obolibrary.org/obo/CHEBI_33252 |
| T621 | 1255-1259 | Chemical | denotes | DMSO | http://purl.obolibrary.org/obo/CHEBI_28262 |
| T622 | 1405-1415 | Chemical | denotes | inhibitors | http://purl.obolibrary.org/obo/CHEBI_35222 |
| T623 | 2002-2016 | Chemical | denotes | crystal violet | http://purl.obolibrary.org/obo/CHEBI_41688 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 2211 | 0-10 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 2237 | 463-473 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 2238 | 1827-1837 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 2239 | 1456-1466 | Species | denotes | infectious | Tax:11120 |
| 2240 | 1511-1521 | Species | denotes | Infectious | Tax:11120 |
| 2241 | 1552-1562 | Species | denotes | infectious | Tax:11120 |
| 2242 | 1655-1665 | Species | denotes | Infectious | Tax:11120 |
| 2243 | 267-271 | Chemical | denotes | DMEM | |
| 2244 | 381-385 | Chemical | denotes | DMSO | MESH:D004121 |
| 2245 | 508-512 | Chemical | denotes | DMEM | |
| 2246 | 706-718 | Chemical | denotes | formaldehyde | MESH:D005557 |
| 2247 | 902-906 | Chemical | denotes | DAPI | MESH:C007293 |
| 2248 | 1255-1259 | Chemical | denotes | DMSO | MESH:D004121 |
| 2249 | 2002-2016 | Chemical | denotes | crystal violet | MESH:D005840 |
| 2250 | 217-226 | Disease | denotes | infection | MESH:D007239 |
| 2251 | 640-649 | Disease | denotes | infection | MESH:D007239 |
| 2252 | 921-929 | Disease | denotes | Infected | MESH:D007239 |
| 2253 | 1170-1179 | Disease | denotes | infection | MESH:D007239 |
| 2254 | 1200-1208 | Disease | denotes | Infected | MESH:D007239 |
| 2255 | 1289-1298 | Disease | denotes | infection | MESH:D007239 |
| 2256 | 1417-1425 | Disease | denotes | infected | MESH:D007239 |
| 2257 | 1608-1617 | Disease | denotes | infection | MESH:D007239 |
| 2258 | 131-133 | CellLine | denotes | E6 | CVCL:4582 |
| 2259 | 1124-1126 | CellLine | denotes | E6 | CVCL:4582 |
| 2260 | 1728-1730 | CellLine | denotes | E6 | CVCL:4582 |
| 2261 | 1752-1754 | CellLine | denotes | E6 | CVCL:4582 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T838 | 0-79 | Sentence | denotes | SARS-CoV-2 viral quantification via antibody staining in presence of inhibitors |
| T839 | 80-104 | Sentence | denotes | (Mount Sinai, New York). |
| T840 | 105-199 | Sentence | denotes | Two thousand (2,000) Vero E6 cells were seeded into 96-well plates and incubated for 24 hours. |
| T841 | 200-394 | Sentence | denotes | Two hours before infection, the medium was replaced with 100 μL of DMEM (2% FBS) containing the compound of interest at concentrations 50% greater than those indicated, including a DMSO control. |
| T842 | 395-584 | Sentence | denotes | Plates were then transferred into the BSL-3 facility and 100 PFU of SARS-CoV-2 (MOI 0.025) was added in 50 μL of DMEM (2% FBS), bringing the final compound concentration to those indicated. |
| T843 | 585-633 | Sentence | denotes | Plates were then incubated for 48 hours at 37°C. |
| T844 | 634-779 | Sentence | denotes | After infection, supernatants were removed and cells were fixed with 4% formaldehyde for 24 hours prior to being removed from the BSL-3 facility. |
| T845 | 780-920 | Sentence | denotes | The cells were then immunostained for the viral NP protein (anti-sera produced in the Garcia-Sastre lab; 1:10,000) with a DAPI counterstain. |
| T846 | 921-1031 | Sentence | denotes | Infected cells (488 nM) and total cells (DAPI) were quantified using the Celigo (Nexcelcom) imaging cytometer. |
| T847 | 1032-1161 | Sentence | denotes | Infectivity was measured by the accumulation of viral NP protein in the nucleus of the Vero E6 cells (fluorescence accumulation). |
| T848 | 1162-1312 | Sentence | denotes | Percent infection was quantified as ((Infected cells/Total cells) - Background) ∗100 and the DMSO control was then set to 100% infection for analysis. |
| T849 | 1313-1393 | Sentence | denotes | The IC50 for each experiment was determined using the Prism software (GraphPad). |
| T850 | 1394-1541 | Sentence | denotes | For select inhibitors, infected supernatants were assayed for infectious viral titer using the Median Tissue Culture Infectious Dose TCID50 method. |
| T851 | 1542-1654 | Sentence | denotes | For this, infectious supernatants were collected at 48 hours post infection and frozen at −80°C until later use. |
| T852 | 1655-1737 | Sentence | denotes | Infectious titers were quantified by limiting dilution titration on Vero E6 cells. |
| T853 | 1738-1812 | Sentence | denotes | Briefly, Vero E6 cells were seeded in 96-well plates at 20,000 cells/well. |
| T854 | 1813-2017 | Sentence | denotes | The next day, SARS-CoV-2-containing supernatant was applied at serial 10-fold dilutions ranging from 10−1 to 10−6 and, after 5 days, viral CPE was detected by staining cell monolayers with crystal violet. |
| T855 | 2018-2079 | Sentence | denotes | TCID50/mL was calculated using the method of Reed and Muench. |