PMC:7094172 / 28116-38511
Annnotations
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T652 | 9542-9546 | CL_6 | denotes | Vero |
| T651 | 9645-9653 | SP_9 | denotes | MERS-CoV |
| T650 | 9786-9798 | CHEBI:9750;CHEBI:9750 | denotes | Triton X-100 |
| T649 | 9888-9896 | SP_9 | denotes | MERS-CoV |
| T648 | 9907-9915 | GO:0042571 | denotes | antibody |
| T647 | 9993-9998 | NCBITaxon:10239 | denotes | virus |
| T646 | 10079-10093 | CHEBI:51766;CHEBI:51766 | denotes | Alex Fluor 568 |
| T645 | 10099-10105 | NCBITaxon:9986 | denotes | rabbit |
| T644 | 10116-10124 | GO:0042571 | denotes | antibody |
| T643 | 10211-10228 | CHEBI:51231;CHEBI:51231 | denotes | 4′,6-Diamidino-2- |
| T642 | 10228-10240 | CHEBI:48559;CHEBI:48559 | denotes | phenylindole |
| T641 | 10242-10246 | CHEBI:51231;CHEBI:51231 | denotes | DAPI |
| T640 | 10279-10283 | SP_9 | denotes | MERS |
| T639 | 10297-10307 | GO:0010467 | denotes | expression |
| T627 | 8797-8801 | CL_6 | denotes | Vero |
| T626 | 8922-8943 | GO:0001171 | denotes | Reverse transcription |
| T625 | 9172-9178 | SO:0000112 | denotes | primer |
| T624 | 9205-9210 | NCBITaxon:10239 | denotes | viral |
| T623 | 9238-9239 | SO:0001030 | denotes | F |
| T622 | 9274-9275 | SO:0001031 | denotes | R |
| T621 | 9307-9315 | SP_9 | denotes | MERS-CoV |
| T620 | 9316-9317 | SO:0001030 | denotes | F |
| T619 | 9348-9356 | SP_9 | denotes | MERS-CoV |
| T618 | 9357-9358 | SO:0001031 | denotes | R |
| T617 | 9400-9404 | SP_9 | denotes | MERS |
| T616 | 9470-9478 | SP_9 | denotes | MERS-CoV |
| T605 | 8223-8227 | CL_6 | denotes | Vero |
| T604 | 8329-8337 | SP_9 | denotes | MERS-CoV |
| T603 | 8560-8567 | CHEBI:2511;CHEBI:2511 | denotes | agarose |
| T602 | 8636-8639 | CHEBI:16526;CHEBI:16526 | denotes | CO2 |
| T601 | 8689-8697 | CHEBI:16842;CHEBI:16842 | denotes | formalin |
| T600 | 8720-8734 | CHEBI:41688;CHEBI:41688 | denotes | crystal violet |
| T591 | 7760-7764 | CL_6 | denotes | Vero |
| T590 | 7926-7934 | SP_9 | denotes | MERS-CoV |
| T589 | 8142-8147 | NCBITaxon:10239 | denotes | virus |
| T579 | 5882-5890 | SP_9 | denotes | MERS-CoV |
| T578 | 5897-5905 | SP_9 | denotes | MERS-CoV |
| T577 | 5911-5918 | GO:0032991 | denotes | complex |
| T576 | 6029-6033 | CHEBI:9754;CHEBI:9754 | denotes | Tris |
| T575 | 6034-6037 | CHEBI:17883;CHEBI:17883 | denotes | HCl |
| T574 | 6058-6062 | CHEBI:26710;CHEBI:26710 | denotes | NaCl |
| T573 | 6209-6217 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T572 | 6394-6400 | SO:0000440 | denotes | vector |
| T571 | 7148-7156 | SP_9 | denotes | MERS-CoV |
| T570 | 7182-7190 | SP_9 | denotes | MERS-CoV |
| T569 | 7233-7239 | SO:0000417 | denotes | domain |
| T568 | 7243-7251 | SP_9 | denotes | MERS-CoV |
| T567 | 7252-7261 | PG_4 | denotes | N protein |
| T566 | 7583-7591 | SP_9 | denotes | MERS-CoV |
| T565 | 7620-7628 | SP_9 | denotes | MERS-CoV |
| T552 | 5231-5235 | CL_6 | denotes | Vero |
| T551 | 5264-5272 | SP_9 | denotes | MERS-CoV |
| T550 | 5312-5321 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T549 | 5369-5380 | CHEBI:86370;CHEBI:86370 | denotes | neutral red |
| T548 | 5489-5494 | CHEBI:23888;CHEBI:23888 | denotes | drugs |
| T547 | 5525-5529 | SP_9 | denotes | MERS |
| T546 | 5551-5555 | CHEBI:23888;CHEBI:23888 | denotes | drug |
| T541 | 4683-4698 | GO:0031649 | denotes | Thermostability |
| T540 | 4782-4786 | CHEBI:9754;CHEBI:9754 | denotes | Tris |
| T539 | 4787-4790 | CHEBI:17883;CHEBI:17883 | denotes | HCl |
| T538 | 4811-4815 | CHEBI:26710;CHEBI:26710 | denotes | NaCl |
| T537 | 4928-4937 | PG_4 | denotes | N protein |
| T536 | 4991-4999 | CHEBI:36357;CHEBI:36357 | denotes | compound |
| T533 | 4320-4324 | CHEBI:9754;CHEBI:9754 | denotes | Tris |
| T532 | 4325-4328 | CHEBI:17883;CHEBI:17883 | denotes | HCl |
| T531 | 4349-4353 | CHEBI:26710;CHEBI:26710 | denotes | NaCl |
| T530 | 4370-4379 | PG_4 | denotes | N protein |
| T529 | 4433-4441 | CHEBI:36357;CHEBI:36357 | denotes | compound |
| T525 | 3587-3591 | SP_9 | denotes | MERS |
| T524 | 3592-3601 | PG_4 | denotes | N Protein |
| T523 | 3616-3625 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T522 | 3662-3666 | SP_9 | denotes | MERS |
| T521 | 3694-3702 | SP_9 | denotes | MERS-CoV |
| T520 | 3762-3766 | CHEBI:23888;CHEBI:23888 | denotes | drug |
| T519 | 3822-3826 | CHEBI:23888;CHEBI:23888 | denotes | drug |
| T518 | 3901-3910 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T517 | 3925-3934 | PG_4 | denotes | N protein |
| T516 | 3940-3949 | PG_4 | denotes | N protein |
| T515 | 4007-4015 | CHEBI:36357;CHEBI:36357 | denotes | compound |
| T510 | 3167-3176 | CHEBI:75958;CHEBI:75958 | denotes | solutions |
| T509 | 3218-3226 | SP_9 | denotes | MERS-CoV |
| T508 | 3253-3267 | CHEBI:64276;CHEBI:64276 | denotes | glutaraldehyde |
| T507 | 3400-3404 | CHEBI:9754;CHEBI:9754 | denotes | Tris |
| T506 | 3405-3408 | CHEBI:17883;CHEBI:17883 | denotes | HCl |
| T505 | 3471-3493 | CHEBI:8984;CHEBI:8984 | denotes | sodium dodecyl sulfate |
| T504 | 3530-3533 | CHEBI:8984;CHEBI:8984 | denotes | SDS |
| T496 | 1733-1741 | SP_9 | denotes | MERS-CoV |
| T495 | 1762-1767 | GO:0040007 | denotes | grown |
| T494 | 1795-1803 | SP_9 | denotes | MERS-CoV |
| T493 | 1910-1918 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T492 | 1988-1996 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T491 | 2017-2033 | CHEBI:62946;CHEBI:62946 | denotes | ammonium sulfate |
| T490 | 2040-2044 | CHEBI:26710;CHEBI:26710 | denotes | NaBr |
| T489 | 2054-2057 | CHEBI:53250;CHEBI:53250 | denotes | PEG |
| T488 | 2134-2142 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T487 | 2144-2152 | SP_9 | denotes | MERS-CoV |
| T486 | 2212-2220 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T485 | 2241-2249 | SP_9 | denotes | MERS-CoV |
| T484 | 2268-2275 | GO:1990524 | denotes | complex |
| T483 | 2316-2324 | SP_9 | denotes | MERS-CoV |
| T482 | 2390-2398 | CHEBI:75958;CHEBI:75958 | denotes | solution |
| T481 | 2444-2452 | SP_9 | denotes | MERS-CoV |
| T480 | 2472-2479 | GO:1990524 | denotes | complex |
| T479 | 2647-2655 | SP_9 | denotes | MERS-CoV |
| T478 | 2665-2672 | GO:0032991 | denotes | complex |
| T461 | 357-364 | BV_20 | denotes | Protein |
| T460 | 365-375 | BV_20;GO:0010467 | denotes | Expression |
| T459 | 398-406 | SP_9 | denotes | MERS-CoV |
| T458 | 509-517 | SP_9 | denotes | MERS-CoV |
| T457 | 556-566 | GO:0010467 | denotes | expression |
| T456 | 567-573 | SO:0000440 | denotes | vector |
| T455 | 785-792 | SO:0000112 | denotes | primers |
| T454 | 817-824 | SO:0000440 | denotes | vectors |
| T453 | 830-841 | GO:0009294 | denotes | transformed |
| T452 | 847-863 | NCBITaxon:562 | denotes | Escherichia coli |
| T451 | 903-908 | GO:0040007 | denotes | grown |
| T450 | 971-978 | BV_20 | denotes | protein |
| T449 | 979-989 | BV_20;GO:0010467 | denotes | expression |
| T448 | 1010-1019 | CHEBI:30353;CHEBI:30353 | denotes | isopropyl |
| T447 | 1020-1047 | CHEBI:75055;CHEBI:75055 | denotes | β-d-1-thiogalactopyranoside |
| T446 | 1049-1053 | CHEBI:61448;CHEBI:61448 | denotes | IPTG |
| T445 | 1182-1187 | GO:0019835 | denotes | lysis |
| T444 | 1203-1207 | CHEBI:26710;CHEBI:26710 | denotes | NaCl |
| T443 | 1215-1219 | CHEBI:9754;CHEBI:9754 | denotes | Tris |
| T442 | 1220-1223 | CHEBI:17883;CHEBI:17883 | denotes | HCl |
| T441 | 1231-1240 | CHEBI:14434;CHEBI:14434 | denotes | imidazole |
| T440 | 1251-1255 | CHEBI:8102;CHEBI:8102 | denotes | PMSF |
| T439 | 1281-1286 | GO:0019835 | denotes | lysed |
| T438 | 1410-1413 | CHEBI:39054;CHEBI:39054 | denotes | NTA |
| T437 | 1483-1492 | CHEBI:14434;CHEBI:14434 | denotes | imidazole |
| T436 | 1584-1588 | CHEBI:24866;CHEBI:24866 | denotes | salt |
| T427 | 36-45 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
| T426 | 173-181 | CHEBI:33893;CHEBI:33893 | denotes | reagents |
| T425 | 275-284 | CHEBI:36357;CHEBI:36357 | denotes | compounds |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T134 | 357-364 | Body_part | denotes | Protein | http://purl.org/sig/ont/fma/fma67257 |
| T135 | 409-417 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T136 | 520-528 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T137 | 615-624 | Body_part | denotes | histidine | http://purl.org/sig/ont/fma/fma82755 |
| T138 | 881-886 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T139 | 892-897 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T140 | 971-978 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T141 | 1102-1107 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T142 | 1270-1275 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T143 | 1532-1539 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T144 | 1902-1909 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T145 | 3159-3166 | Body_part | denotes | Protein | http://purl.org/sig/ont/fma/fma67257 |
| T146 | 3594-3601 | Body_part | denotes | Protein | http://purl.org/sig/ont/fma/fma67257 |
| T147 | 3927-3934 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T148 | 3942-3949 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T149 | 4372-4379 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T150 | 4467-4477 | Body_part | denotes | Tryptophan | http://purl.org/sig/ont/fma/fma82767 |
| T151 | 4930-4937 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T152 | 5239-5244 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T153 | 5332-5336 | Body_part | denotes | Cell | http://purl.org/sig/ont/fma/fma68646 |
| T154 | 5430-5434 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T155 | 5470-5475 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T156 | 5539-5544 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T157 | 5859-5866 | Body_part | denotes | Protein | http://purl.org/sig/ont/fma/fma67257 |
| T158 | 5959-5966 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T159 | 6245-6254 | Body_part | denotes | capillary | http://purl.org/sig/ont/fma/fma63194 |
| T160 | 7023-7027 | Body_part | denotes | body | http://purl.org/sig/ont/fma/fma256135 |
| T161 | 7254-7261 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T162 | 7768-7773 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T163 | 8015-8020 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T164 | 8231-8236 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T165 | 8781-8784 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T166 | 8805-8810 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T167 | 9211-9214 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T168 | 9405-9408 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T169 | 9550-9555 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T170 | 9675-9680 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T171 | 9907-9915 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T172 | 10004-10009 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T173 | 10116-10124 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T174 | 10370-10372 | Body_part | denotes | AG | http://purl.org/sig/ont/fma/fma61898 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T3 | 6245-6254 | Body_part | denotes | capillary | http://purl.obolibrary.org/obo/UBERON_0001982 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T99 | 1744-1747 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T101 | 1806-1809 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T103 | 2252-2255 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T105 | 2327-2330 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T107 | 2455-2458 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T109 | 2933-2936 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T111 | 3229-3232 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T113 | 3705-3708 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T115 | 5705-5718 | Disease | denotes | monochromatic | http://purl.obolibrary.org/obo/MONDO_0018852 |
| T116 | 7157-7160 | Disease | denotes | NTD | http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075 |
| T118 | 7744-7759 | Disease | denotes | Viral Infection | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T119 | 7750-7759 | Disease | denotes | Infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T120 | 7915-7924 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T121 | 7941-7944 | Disease | denotes | EMC | http://purl.obolibrary.org/obo/MONDO_0012825 |
| T122 | 7972-7981 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T123 | 9630-9639 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T207 | 46-48 | http://purl.obolibrary.org/obo/CLO_0008285 | denotes | P1 |
| T208 | 50-52 | http://purl.obolibrary.org/obo/CLO_0008307 | denotes | P2 |
| T209 | 241-243 | http://purl.obolibrary.org/obo/CLO_0009141 | denotes | St |
| T210 | 241-243 | http://purl.obolibrary.org/obo/CLO_0050980 | denotes | St |
| T211 | 252-254 | http://purl.obolibrary.org/obo/CLO_0007815 | denotes | MO |
| T212 | 546-547 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T213 | 613-614 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T214 | 881-886 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T215 | 892-897 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T216 | 1102-1107 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T217 | 1157-1161 | http://purl.obolibrary.org/obo/CLO_0001387 | denotes | 4 °C |
| T218 | 1270-1275 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T219 | 1334-1338 | http://purl.obolibrary.org/obo/CLO_0001387 | denotes | 4 °C |
| T220 | 1405-1406 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T221 | 1496-1497 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T222 | 1900-1901 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T223 | 1932-1936 | http://purl.obolibrary.org/obo/CLO_0007735 | denotes | mL–1 |
| T224 | 2085-2087 | http://purl.obolibrary.org/obo/CLO_0009141 | denotes | St |
| T225 | 2085-2087 | http://purl.obolibrary.org/obo/CLO_0050980 | denotes | St |
| T226 | 2096-2098 | http://purl.obolibrary.org/obo/CLO_0007815 | denotes | MO |
| T227 | 2125-2126 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T228 | 2194-2195 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T229 | 2281-2283 | http://purl.obolibrary.org/obo/CLO_0008285 | denotes | P1 |
| T230 | 2372-2373 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T231 | 2415-2417 | http://purl.obolibrary.org/obo/CLO_0008285 | denotes | P1 |
| T232 | 2485-2487 | http://purl.obolibrary.org/obo/CLO_0008285 | denotes | P1 |
| T233 | 2899-2901 | http://purl.obolibrary.org/obo/CLO_0007860 | denotes | MR |
| T234 | 3271-3272 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T235 | 3675-3676 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T236 | 3803-3811 | http://purl.obolibrary.org/obo/OBI_0100026 | denotes | Organics |
| T237 | 3803-3811 | http://purl.obolibrary.org/obo/UBERON_0000468 | denotes | Organics |
| T238 | 3984-3985 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T239 | 4046-4047 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T240 | 4222-4224 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
| T241 | 4222-4224 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
| T242 | 4291-4292 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T243 | 4453-4457 | http://purl.obolibrary.org/obo/CLO_0001387 | denotes | 4 °C |
| T244 | 4509-4510 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T245 | 4753-4754 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T246 | 4825-4826 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T247 | 5011-5015 | http://purl.obolibrary.org/obo/CLO_0001387 | denotes | 4 °C |
| T248 | 5120-5121 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T249 | 5231-5244 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T250 | 5326-5328 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T251 | 5332-5336 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | Cell |
| T252 | 5430-5434 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T253 | 5470-5475 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T254 | 5539-5544 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T255 | 5703-5704 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T256 | 5741-5742 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | Å |
| T257 | 5804-5805 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | Å |
| T258 | 5977-5981 | http://purl.obolibrary.org/obo/CLO_0007842 | denotes | M P3 |
| T259 | 6000-6001 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T260 | 6085-6086 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T261 | 6134-6135 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T262 | 6236-6237 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T263 | 6381-6382 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T264 | 6422-6423 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | Å |
| T265 | 7175-7177 | http://purl.obolibrary.org/obo/CLO_0050509 | denotes | 27 |
| T266 | 7392-7393 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T267 | 7592-7594 | http://purl.obolibrary.org/obo/CLO_0008192 | denotes | NP |
| T268 | 7760-7773 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T269 | 7954-7955 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T270 | 8015-8020 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T271 | 8142-8147 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T272 | 8223-8236 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T273 | 8555-8558 | http://purl.obolibrary.org/obo/CLO_0050644 | denotes | w/v |
| T274 | 8569-8572 | http://purl.obolibrary.org/obo/CLO_0053733 | denotes | 1:1 |
| T275 | 8715-8718 | http://purl.obolibrary.org/obo/CLO_0050644 | denotes | w/v |
| T276 | 8797-8810 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T277 | 9094-9095 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T278 | 9238-9242 | http://purl.obolibrary.org/obo/CLO_0002983 | denotes | F: 5 |
| T279 | 9316-9320 | http://purl.obolibrary.org/obo/CLO_0002983 | denotes | F: 5 |
| T280 | 9506-9508 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T281 | 9542-9555 | http://purl.obolibrary.org/obo/CLO_0051719 | denotes | Vero E6 cells |
| T282 | 9675-9680 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T283 | 9737-9741 | http://purl.obolibrary.org/obo/CLO_0001387 | denotes | 4 °C |
| T284 | 9844-9845 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T285 | 9993-9998 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T286 | 10004-10009 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T287 | 10327-10328 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T236 | 46-48 | Chemical | denotes | P1 | http://purl.obolibrary.org/obo/CHEBI_60949 |
| T237 | 50-52 | Chemical | denotes | P2 | http://purl.obolibrary.org/obo/CHEBI_33472 |
| T238 | 173-181 | Chemical | denotes | reagents | http://purl.obolibrary.org/obo/CHEBI_33893 |
| T239 | 236-238 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T240 | 357-364 | Chemical | denotes | Protein | http://purl.obolibrary.org/obo/CHEBI_16541 |
| T241 | 409-417 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T242 | 520-528 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T243 | 615-624 | Chemical | denotes | histidine | http://purl.obolibrary.org/obo/CHEBI_27570 |
| T244 | 809-811 | Chemical | denotes | S3 | http://purl.obolibrary.org/obo/CHEBI_29388 |
| T245 | 971-978 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T246 | 1010-1019 | Chemical | denotes | isopropyl | http://purl.obolibrary.org/obo/CHEBI_30353 |
| T247 | 1049-1053 | Chemical | denotes | IPTG | http://purl.obolibrary.org/obo/CHEBI_61448 |
| T248 | 1188-1194 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T249 | 1203-1207 | Chemical | denotes | NaCl | http://purl.obolibrary.org/obo/CHEBI_26710 |
| T250 | 1215-1219 | Chemical | denotes | Tris | http://purl.obolibrary.org/obo/CHEBI_9754 |
| T251 | 1220-1223 | Chemical | denotes | HCl | http://purl.obolibrary.org/obo/CHEBI_17883 |
| T252 | 1231-1240 | Chemical | denotes | imidazole | http://purl.obolibrary.org/obo/CHEBI_14434|http://purl.obolibrary.org/obo/CHEBI_16069 |
| T254 | 1251-1255 | Chemical | denotes | PMSF | http://purl.obolibrary.org/obo/CHEBI_8102 |
| T255 | 1407-1409 | Chemical | denotes | Ni | http://purl.obolibrary.org/obo/CHEBI_28112 |
| T256 | 1410-1413 | Chemical | denotes | NTA | http://purl.obolibrary.org/obo/CHEBI_39054|http://purl.obolibrary.org/obo/CHEBI_44557 |
| T258 | 1465-1471 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T259 | 1483-1492 | Chemical | denotes | imidazole | http://purl.obolibrary.org/obo/CHEBI_14434|http://purl.obolibrary.org/obo/CHEBI_16069 |
| T261 | 1532-1539 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T262 | 1584-1588 | Chemical | denotes | salt | http://purl.obolibrary.org/obo/CHEBI_24866|http://purl.obolibrary.org/obo/CHEBI_26710 |
| T264 | 1589-1595 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T265 | 1902-1909 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T266 | 1910-1918 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T267 | 1988-1996 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T268 | 2017-2033 | Chemical | denotes | ammonium sulfate | http://purl.obolibrary.org/obo/CHEBI_62946 |
| T269 | 2017-2025 | Chemical | denotes | ammonium | http://purl.obolibrary.org/obo/CHEBI_28938 |
| T270 | 2026-2033 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T271 | 2040-2044 | Chemical | denotes | NaBr | http://purl.obolibrary.org/obo/CHEBI_63004 |
| T272 | 2054-2057 | Chemical | denotes | PEG | http://purl.obolibrary.org/obo/CHEBI_46793 |
| T273 | 2134-2142 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T274 | 2212-2220 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T275 | 2281-2283 | Chemical | denotes | P1 | http://purl.obolibrary.org/obo/CHEBI_60949 |
| T276 | 2390-2398 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T277 | 2415-2417 | Chemical | denotes | P1 | http://purl.obolibrary.org/obo/CHEBI_60949 |
| T278 | 2485-2487 | Chemical | denotes | P1 | http://purl.obolibrary.org/obo/CHEBI_60949 |
| T279 | 2534-2539 | Chemical | denotes | Light | http://purl.obolibrary.org/obo/CHEBI_30212 |
| T280 | 2899-2901 | Chemical | denotes | MR | http://purl.obolibrary.org/obo/CHEBI_74698 |
| T281 | 3159-3166 | Chemical | denotes | Protein | http://purl.obolibrary.org/obo/CHEBI_16541 |
| T282 | 3253-3267 | Chemical | denotes | glutaraldehyde | http://purl.obolibrary.org/obo/CHEBI_64276 |
| T283 | 3400-3404 | Chemical | denotes | Tris | http://purl.obolibrary.org/obo/CHEBI_9754 |
| T284 | 3405-3408 | Chemical | denotes | HCl | http://purl.obolibrary.org/obo/CHEBI_17883 |
| T285 | 3471-3493 | Chemical | denotes | sodium dodecyl sulfate | http://purl.obolibrary.org/obo/CHEBI_8984 |
| T286 | 3471-3477 | Chemical | denotes | sodium | http://purl.obolibrary.org/obo/CHEBI_26708 |
| T287 | 3478-3493 | Chemical | denotes | dodecyl sulfate | http://purl.obolibrary.org/obo/CHEBI_23872 |
| T288 | 3478-3485 | Chemical | denotes | dodecyl | http://purl.obolibrary.org/obo/CHEBI_23870 |
| T289 | 3486-3493 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T290 | 3494-3508 | Chemical | denotes | polyacrylamide | http://purl.obolibrary.org/obo/CHEBI_51135|http://purl.obolibrary.org/obo/CHEBI_53656|http://purl.obolibrary.org/obo/CHEBI_60766 |
| T293 | 3530-3533 | Chemical | denotes | SDS | http://purl.obolibrary.org/obo/CHEBI_8984 |
| T294 | 3567-3570 | Chemical | denotes | PPI | http://purl.obolibrary.org/obo/CHEBI_53266|http://purl.obolibrary.org/obo/CHEBI_60614 |
| T296 | 3594-3601 | Chemical | denotes | Protein | http://purl.obolibrary.org/obo/CHEBI_16541 |
| T297 | 3650-3653 | Chemical | denotes | PPI | http://purl.obolibrary.org/obo/CHEBI_53266|http://purl.obolibrary.org/obo/CHEBI_60614 |
| T299 | 3721-3724 | Chemical | denotes | H37 | http://purl.obolibrary.org/obo/CHEBI_34780 |
| T300 | 3762-3766 | Chemical | denotes | drug | http://purl.obolibrary.org/obo/CHEBI_23888 |
| T301 | 3822-3826 | Chemical | denotes | drug | http://purl.obolibrary.org/obo/CHEBI_23888 |
| T302 | 3927-3934 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T303 | 3942-3949 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T304 | 4111-4118 | Chemical | denotes | ligands | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T305 | 4222-4224 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
| T306 | 4293-4299 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T307 | 4320-4324 | Chemical | denotes | Tris | http://purl.obolibrary.org/obo/CHEBI_9754 |
| T308 | 4325-4328 | Chemical | denotes | HCl | http://purl.obolibrary.org/obo/CHEBI_17883 |
| T309 | 4349-4353 | Chemical | denotes | NaCl | http://purl.obolibrary.org/obo/CHEBI_26710 |
| T310 | 4372-4379 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T311 | 4418-4424 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T312 | 4467-4477 | Chemical | denotes | Tryptophan | http://purl.obolibrary.org/obo/CHEBI_16828|http://purl.obolibrary.org/obo/CHEBI_27897 |
| T314 | 4517-4519 | Chemical | denotes | FP | http://purl.obolibrary.org/obo/CHEBI_74750 |
| T315 | 4572-4574 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T316 | 4755-4761 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T317 | 4782-4786 | Chemical | denotes | Tris | http://purl.obolibrary.org/obo/CHEBI_9754 |
| T318 | 4787-4790 | Chemical | denotes | HCl | http://purl.obolibrary.org/obo/CHEBI_17883 |
| T319 | 4811-4815 | Chemical | denotes | NaCl | http://purl.obolibrary.org/obo/CHEBI_26710 |
| T320 | 4833-4835 | Chemical | denotes | FP | http://purl.obolibrary.org/obo/CHEBI_74750 |
| T321 | 4888-4890 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T322 | 4930-4937 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T323 | 4976-4982 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T324 | 5307-5321 | Chemical | denotes | lead compounds | http://purl.obolibrary.org/obo/CHEBI_33585 |
| T325 | 5369-5380 | Chemical | denotes | neutral red | http://purl.obolibrary.org/obo/CHEBI_86370 |
| T326 | 5489-5494 | Chemical | denotes | drugs | http://purl.obolibrary.org/obo/CHEBI_23888 |
| T327 | 5551-5555 | Chemical | denotes | drug | http://purl.obolibrary.org/obo/CHEBI_23888 |
| T328 | 5859-5866 | Chemical | denotes | Protein | http://purl.obolibrary.org/obo/CHEBI_16541 |
| T329 | 5959-5966 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T330 | 6002-6008 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T331 | 6029-6033 | Chemical | denotes | Tris | http://purl.obolibrary.org/obo/CHEBI_9754 |
| T332 | 6034-6037 | Chemical | denotes | HCl | http://purl.obolibrary.org/obo/CHEBI_17883 |
| T333 | 6058-6062 | Chemical | denotes | NaCl | http://purl.obolibrary.org/obo/CHEBI_26710 |
| T334 | 6209-6217 | Chemical | denotes | solution | http://purl.obolibrary.org/obo/CHEBI_75958 |
| T335 | 6238-6244 | Chemical | denotes | quartz | http://purl.obolibrary.org/obo/CHEBI_46727 |
| T336 | 6282-6288 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T337 | 6746-6748 | Chemical | denotes | Rg | http://purl.obolibrary.org/obo/CHEBI_33368 |
| T338 | 7166-7168 | Chemical | denotes | ID | http://purl.obolibrary.org/obo/CHEBI_141439 |
| T339 | 7254-7261 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T340 | 7267-7269 | Chemical | denotes | ID | http://purl.obolibrary.org/obo/CHEBI_141439 |
| T341 | 7592-7594 | Chemical | denotes | NP | http://purl.obolibrary.org/obo/CHEBI_50803|http://purl.obolibrary.org/obo/CHEBI_53793|http://purl.obolibrary.org/obo/CHEBI_73425 |
| T344 | 8085-8094 | 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 |
| T348 | 8560-8567 | Chemical | denotes | agarose | http://purl.obolibrary.org/obo/CHEBI_2511 |
| T349 | 8636-8639 | Chemical | denotes | CO2 | http://purl.obolibrary.org/obo/CHEBI_16526 |
| T350 | 8720-8734 | Chemical | denotes | crystal violet | http://purl.obolibrary.org/obo/CHEBI_41688 |
| T351 | 9786-9798 | Chemical | denotes | Triton X-100 | http://purl.obolibrary.org/obo/CHEBI_9750 |
| T352 | 9855-9861 | Chemical | denotes | buffer | http://purl.obolibrary.org/obo/CHEBI_35225 |
| T353 | 10084-10089 | Chemical | denotes | Fluor | http://purl.obolibrary.org/obo/CHEBI_24061 |
| T354 | 10178-10180 | Chemical | denotes | MA | http://purl.obolibrary.org/obo/CHEBI_474859|http://purl.obolibrary.org/obo/CHEBI_73610|http://purl.obolibrary.org/obo/CHEBI_90325 |
| T357 | 10228-10240 | Chemical | denotes | phenylindole | http://purl.obolibrary.org/obo/CHEBI_48559 |
| T358 | 10242-10246 | Chemical | denotes | DAPI | http://purl.obolibrary.org/obo/CHEBI_51231 |
| T359 | 10370-10372 | Chemical | denotes | AG | http://purl.obolibrary.org/obo/CHEBI_27569|http://purl.obolibrary.org/obo/CHEBI_40618|http://purl.obolibrary.org/obo/CHEBI_73757 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T23 | 1182-1187 | http://purl.obolibrary.org/obo/GO_0019835 | denotes | lysis |
| T24 | 5381-5387 | http://purl.obolibrary.org/obo/GO_0098739 | denotes | uptake |
| T25 | 5381-5387 | http://purl.obolibrary.org/obo/GO_0098657 | denotes | uptake |
| T26 | 7744-7759 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | Viral Infection |
| T27 | 8922-8943 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | Reverse transcription |
| T28 | 8930-8943 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T5 | 8421-8430 | Phenotype | denotes | agitation | http://purl.obolibrary.org/obo/HP_0000713 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T214 | 0-20 | Sentence | denotes | Experimental Section |
| T215 | 22-31 | Sentence | denotes | Chemicals |
| T216 | 32-168 | Sentence | denotes | The compounds P1, P2, and P3 were purchased from Maybridge Chemical Company, TCI Chemicals, and Sigma-Aldrich Corporation, respectively. |
| T217 | 169-256 | Sentence | denotes | The reagents used in this study were purchased from Sigma Chemical Co. (St. Louis, MO). |
| T218 | 257-346 | Sentence | denotes | The purity of all compounds is higher than 95% and was used without further purification. |
| T219 | 348-393 | Sentence | denotes | Cloning, Protein Expression, and Purification |
| T220 | 394-647 | Sentence | denotes | The MERS-CoV N proteins were prepared according to previously described methods.46 In brief, the cDNA fragments of MERS-CoV N proteins were cloned into a pET-28a expression vector (Merck, Darmstadt, Germany) containing a histidine tag-encoding sequence. |
| T221 | 648-812 | Sentence | denotes | Vectors encoding the single mutants N39A, N39G, and W43A were generated using the QuikChange site-directed mutagenesis protocol with the primers listed in Table S3. |
| T222 | 813-887 | Sentence | denotes | The vectors were transformed into Escherichia coli BL21 (DE3) pLysS cells. |
| T223 | 888-1097 | Sentence | denotes | The cells were grown to an optical density range of 0.6–0.8 at 600 nm at 37 °C and protein expression induced with 1.0 mM isopropyl β-d-1-thiogalactopyranoside (IPTG), followed by incubation at 10 °C for 24 h. |
| T224 | 1098-1265 | Sentence | denotes | The cells were harvested by centrifugation (6000g, 12 min, 4 °C) and resuspended in lysis buffer (150 mM NaCl, 50 mM Tris-HCl, 15 mM imidazole, and 1 mM PMSF; pH 7.5). |
| T225 | 1266-1357 | Sentence | denotes | The cells were lysed by sonication and centrifuged (10000g, 40 min, 4 °C) to remove debris. |
| T226 | 1358-1526 | Sentence | denotes | The supernatant was purified by injection into a Ni–NTA column (Merck, Darmstadt, Germany) and eluted with buffer containing imidazole at a gradient range of 15–300 mM. |
| T227 | 1527-1695 | Sentence | denotes | Pure protein fractions were collected, dialyzed with low-salt buffer, concentrated, and quantified by the Bradford method (BioShop Canada Inc., Burlington, ON, Canada). |
| T228 | 1697-1732 | Sentence | denotes | Crystallization and Data Collection |
| T229 | 1733-1899 | Sentence | denotes | MERS-CoV N-NTD crystals were grown as previously described:46 MERS-CoV N-NTD was crystallized at room temperature (∼25 °C) by the sitting-drop vapor-diffusion method. |
| T230 | 1900-2143 | Sentence | denotes | A protein solution (2 μL; 10 mg mL–1) was mixed with an equal volume of crystallization solution consisting of 75 mM ammonium sulfate, 2 mM NaBr, and 29% PEG 3350 (Sigma-Aldrich Corp., St. Louis, MO) and equilibrated against a 300 μL solution. |
| T231 | 2144-2240 | Sentence | denotes | MERS-CoV N-NTD:P3 co-crystals were obtained using a crystallization solution containing 2 mM P3. |
| T232 | 2241-2418 | Sentence | denotes | MERS-CoV N-NTD crystals in complex with P1 were obtained by soaking native MERS-CoV N-NTD crystals for 90 s at room temperature in a crystallization solution containing 2 mM P1. |
| T233 | 2419-2627 | Sentence | denotes | Diffraction datasets for MERS-CoV N-NTD alone and in complex with P1 were collected at beamline 13B1 of the Taiwan Light Source (TLS) of the National Synchrotron Research Center (NSRRC; Hsinchu City, Taiwan). |
| T234 | 2628-2737 | Sentence | denotes | Diffraction of the MERS-CoV N-NTD:P3 complex was performed at the beamline SP44XU of SPring-8 (Hyogo, Japan). |
| T235 | 2739-2778 | Sentence | denotes | Structural Determination and Refinement |
| T236 | 2779-2845 | Sentence | denotes | Diffraction data were processed and scaled with HKL-2000 software. |
| T237 | 2846-3036 | Sentence | denotes | The structures were solved by molecular replacement (MR) in Phenix47 using HCoV-OC43 N-NTD (PDB:4J3K) as the search model.24 The initial models were rebuilt and refined by Coot48 and Phenix. |
| T238 | 3037-3131 | Sentence | denotes | Structures were visualized using PyMOL (The PyMOL Molecular Graphics System, version 2.3.0).49 |
| T239 | 3133-3158 | Sentence | denotes | Chemical Cross-Link Assay |
| T240 | 3159-3303 | Sentence | denotes | Protein solutions containing 40 μM of wild-type or mutated MERS-CoV N-NTD were incubated with glutaraldehyde at a final concentration of 1% v/v. |
| T241 | 3304-3418 | Sentence | denotes | The reaction was conducted at room temperature for 10 min and quenched with the addition of 1 M Tris-HCl (pH 7.5). |
| T242 | 3419-3540 | Sentence | denotes | The samples were then stored on ice and analyzed by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). |
| T243 | 3542-3601 | Sentence | denotes | Discovery of Orthosteric PPI Stabilizers for MERS N Protein |
| T244 | 3602-3777 | Sentence | denotes | To screen for compounds that induce hydrophobic PPI between MERS N-NTDs, a model of dimeric MERS-CoV N-NTD without the H37 and M38 residues was used in virtual drug screening. |
| T245 | 3778-3935 | Sentence | denotes | The Sigma-Aldrich, Acros Organics, and ZINC drug databases were screened with LIBDOCK molecular docking software to obtain compounds acting on the N protein. |
| T246 | 3936-4001 | Sentence | denotes | The N protein binding pocket was represented by a set of spheres. |
| T247 | 4002-4070 | Sentence | denotes | Each compound in the database was docked in a pocket comprising W43. |
| T248 | 4071-4225 | Sentence | denotes | The hydrophobic complementarity between ligands and receptors was calculated with PLATINUM.31 Compounds with higher docking scores are listed in Table S2. |
| T249 | 4227-4252 | Sentence | denotes | Fluorescence Measurements |
| T250 | 4253-4354 | Sentence | denotes | Fluorescence assays were performed in a buffer consisting of 50 mM Tris-HCl (pH 8.3) and 150 mM NaCl. |
| T251 | 4355-4466 | Sentence | denotes | One micromolar N protein was incubated either with the control buffer or each compound (10 μM) at 4 °C for 1 h. |
| T252 | 4467-4575 | Sentence | denotes | Tryptophan fluorescence was acquired with a Jasco FP-8300 fluorescence spectrometer (JASCO International Co. |
| T253 | 4576-4681 | Sentence | denotes | Ltd., Tokyo, Japan) at an excitation wavelength of 280 nm and an emission wavelength range of 300–400 nm. |
| T254 | 4683-4711 | Sentence | denotes | Thermostability Measurements |
| T255 | 4712-4891 | Sentence | denotes | Thermostability assays were conducted in a buffer consisting of 50 mM Tris-HCl (pH 7.5) and 150 mM NaCl and with a JASCO FP-8300 fluorescence spectrometer (JASCO International Co. |
| T256 | 4892-4912 | Sentence | denotes | Ltd., Tokyo, Japan). |
| T257 | 4913-5024 | Sentence | denotes | One micromolar N protein was incubated either with the control buffer or each compound (10 μM) at 4 °C for 2 h. |
| T258 | 5025-5186 | Sentence | denotes | UV absorbance vs temperature profiles were acquired by ramping the temperature from 4–95 °C at a 1 °C min–1 and recording the absorbance at 280 nm every 0.5 min. |
| T259 | 5188-5230 | Sentence | denotes | Determining CC50 and EC50 of Hit Compounds |
| T260 | 5231-5331 | Sentence | denotes | Vero E6 cells were infected with MERS-CoV with M.O.I = 0.1 and treated with lead compounds for 48 h. |
| T261 | 5332-5394 | Sentence | denotes | Cell viability was determined by the neutral red uptake assay. |
| T262 | 5395-5445 | Sentence | denotes | CC50 and EC50 were determined by % cell viability. |
| T263 | 5446-5500 | Sentence | denotes | CC50 was determined for cells treated with drugs only. |
| T264 | 5501-5567 | Sentence | denotes | EC50 was determined for MERS-infected cells after drug treatments. |
| T265 | 5569-5616 | Sentence | denotes | Small-Angle X-ray Scattering (SAXS) Experiments |
| T266 | 5617-5840 | Sentence | denotes | SAXS experiments were performed at the BL23A SAXS beamline at the TLS of NSRRC, using a monochromatic X-ray beam (λ = 0.828 Å), with an integrated HPLC system of an Agilent-Bio SEC-3 300 Å column (Agilent Technologies, Inc. |
| T267 | 5841-5858 | Sentence | denotes | Santa Clara, CA). |
| T268 | 5859-6078 | Sentence | denotes | Protein samples (44 μM MERS-CoV N and MERS-CoV N:P3 complex prepared by incubating the 44 μM native protein with 440 μM P3) were prepared in a buffer consisting of 50 mM Tris-HCl (pH 8.5) and 150 mM NaCl on ice for 1 h. |
| T269 | 6079-6163 | Sentence | denotes | Then, a 100 μL aliquot was injected into the column at a flow rate of 0.02 mL min–1. |
| T270 | 6164-6326 | Sentence | denotes | After passing through the column, the sample solution was directed into a quartz capillary (2 mm dia.) for subsequent buffer and sample SAXS measurement at 288 K. |
| T271 | 6327-6426 | Sentence | denotes | The sample-to-detector distance of 2.5 m used covered a scattering vector q range of 0.01–0.20 Å–1. |
| T272 | 6427-6496 | Sentence | denotes | Here, q is defined as q = (4π/λ) sin θ, with the scattering angle 2θ. |
| T273 | 6497-6596 | Sentence | denotes | Thirty-six frames were collected for each sample elution with an X-ray frame exposure time of 30 s. |
| T274 | 6597-6776 | Sentence | denotes | Frames of good data overlapping (namely, of low radiation damage effects) were merged for improved data statistics and analyzed to determine initial Rg using PRIMUS (version 3.1). |
| T275 | 6777-6897 | Sentence | denotes | The P(r) distance distribution and Dmax were calculated from the experimental scattering curve using GNOM (version 4.1). |
| T276 | 6898-7111 | Sentence | denotes | An ensemble optimization method (EOM) analysis was performed through the EMBL Hamburg web interface.50 Modeling of the rigid body crystal structure was calculated and generated using CRYSOL (ATSAS Program Suite v. |
| T277 | 7112-7169 | Sentence | denotes | 2.8.2).51 The crystal structures of MERS-CoV NTD (PDB ID: |
| T278 | 7170-7270 | Sentence | denotes | 4UD1)27 and MERS-CoV NTD:P3 (solved in this study) and the CTD domain of MERS-CoV N protein (PDB ID: |
| T279 | 7271-7321 | Sentence | denotes | 6G13)23 were used as rigid bodies in EOM analysis. |
| T280 | 7322-7410 | Sentence | denotes | With the EOM analysis, 1000 models were generated in the beginning as a structural pool. |
| T281 | 7411-7571 | Sentence | denotes | Selected from the SAXS profiles of the structural pool was an ensemble of models that could fit the experimental scattering curve with their linear combination. |
| T282 | 7572-7742 | Sentence | denotes | Tetrameric MERS-CoV NP conformations and 16-mer MERS-CoV:P3 conformations were selected because their ensemble generated curves fit best to the experimental SAXS results. |
| T283 | 7744-7759 | Sentence | denotes | Viral Infection |
| T284 | 7760-7925 | Sentence | denotes | Vero E6 cells (ATCC No: CRL-1586) were seeded onto culture plates with complete Dulbecco’s modified Eagle’s medium (DMEM) and incubated overnight prior to infection. |
| T285 | 7926-8148 | Sentence | denotes | MERS-CoV (HCoV-EMC/2012) at a multiplicity of infection (M.O.I.) of 0.1 was added to the cells and incubated at 37 °C for 1 h, followed by washing thrice with phosphate-buffered saline (PBS) to remove the unattached virus. |
| T286 | 8149-8208 | Sentence | denotes | Fresh complete culture medium was then added to the plates. |
| T287 | 8210-8222 | Sentence | denotes | Plaque Assay |
| T288 | 8223-8309 | Sentence | denotes | Vero E6 cells were seeded in 12-well plates and incubated overnight before the assays. |
| T289 | 8310-8444 | Sentence | denotes | Samples containing MERS-CoV were serially diluted 10× with MEM, added to the wells, and incubated for 1 h with agitation every 15 min. |
| T290 | 8445-8508 | Sentence | denotes | After incubation, the inocula were removed and washed with PBS. |
| T291 | 8509-8651 | Sentence | denotes | An overlay medium comprising 2× MEM and 1.5% (w/v) agarose (1:1) was added to the wells followed by incubation at 37 °C and 5% CO2 for 3 days. |
| T292 | 8652-8765 | Sentence | denotes | The plates were fixed with 10% (v/v) formalin containing 0.2% (w/v) crystal violet, and the plaques were counted. |
| T293 | 8767-8774 | Sentence | denotes | RT-qPCR |
| T294 | 8775-8921 | Sentence | denotes | Total RNA of infected Vero E6 cells was extracted with the RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. |
| T295 | 8922-9062 | Sentence | denotes | Reverse transcription and PCR amplification were performed with an iTaq Universal One-Step RT-qPCR Kit (Bio-Rad Laboratories, Hercules, CA). |
| T296 | 9063-9167 | Sentence | denotes | Real-time PCR was performed in a StepOnePlus Real-Time PCR System (Applied Biosystems, Foster City, CA). |
| T297 | 9168-9240 | Sentence | denotes | The primer pairs used to amplify the viral RNA were as follows: GAPDH-F: |
| T298 | 9241-9276 | Sentence | denotes | 5′-GAAGGTGAAGGTCGGAGTC-3′; GAPDH-R: |
| T299 | 9277-9318 | Sentence | denotes | 5′-GAAGATGGTGATGGGATTTC-3′;53 MERS-CoV-F: |
| T300 | 9319-9359 | Sentence | denotes | 5′-CCACTACTCCCATTTCGTCAG-3′; MERS-CoV-R: |
| T301 | 9360-9515 | Sentence | denotes | 5′-CAGTATGTGTAGTGCGCATATAAGCA-3′.54 The MERS RNA levels were normalized to that of GAPDH and compared between MERS-CoV groups at 24 h.p.i. and at 48 h.p.i. |
| T302 | 9517-9541 | Sentence | denotes | Immunofluorescence Assay |
| T303 | 9542-9670 | Sentence | denotes | Vero E6 cells were seeded in eight-well chamber slides and incubated overnight prior to infection with MERS-CoV at M.O.I. = 0.1. |
| T304 | 9671-9810 | Sentence | denotes | The cells were fixed with 4% (v/v) paraformaldehyde for 20 min at 4 °C, followed by permeabilization in 0.1% (v/v) Triton X-100 for 10 min. |
| T305 | 9811-9882 | Sentence | denotes | Then, 7.5% (v/v) BSA was used as a blocking buffer for 30 min at 37 °C. |
| T306 | 9883-9999 | Sentence | denotes | Anti-MERS-CoV N primary antibody (1:500 dilution; Sino Biological Inc., Beijing, China) was used to stain the virus. |
| T307 | 10000-10210 | Sentence | denotes | The cells were incubated overnight, washed thrice with PBS, and incubated with Alex Fluor 568 anti-rabbit secondary antibody (1:1000 dilution; Thermo Fisher Scientific, Waltham, MA) for 1 h at room temperature. |
| T308 | 10211-10278 | Sentence | denotes | 4′,6-Diamidino-2-phenylindole (DAPI) was added during the PBS wash. |
| T309 | 10279-10395 | Sentence | denotes | MERS nucleocapsid expression was examined under a confocal microscope (LSM-700; Carl Zeiss AG, Oberkochen, Germany). |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id | tao:has_standard_notation |
|---|---|---|---|---|---|---|
| 446 | 398-406 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 447 | 509-517 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 448 | 847-874 | Species | denotes | Escherichia coli BL21 (DE3) | Tax:469008 | |
| 449 | 615-624 | Chemical | denotes | histidine | MESH:D006639 | |
| 450 | 1407-1413 | Chemical | denotes | Ni–NTA | ||
| 451 | 1483-1492 | Chemical | denotes | imidazole | MESH:C029899 | |
| 452 | 1584-1588 | Chemical | denotes | salt | MESH:D012492 | |
| 453 | 690-694 | Mutation | denotes | N39G | p.N39G | |
| 470 | 1932-1936 | Gene | denotes | mL–1 | Gene:23961 | |
| 471 | 2703-2721 | Gene | denotes | SP44XU of SPring-8 | ||
| 472 | 1733-1741 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 473 | 1795-1803 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 474 | 2144-2152 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 475 | 2241-2249 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 476 | 2316-2324 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 477 | 2444-2452 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 478 | 2647-2655 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 479 | 2017-2033 | Chemical | denotes | ammonium sulfate | MESH:D000645 | |
| 480 | 2040-2044 | Chemical | denotes | NaBr | ||
| 481 | 2054-2057 | Chemical | denotes | PEG | ||
| 482 | 2159-2161 | Chemical | denotes | P3 | ||
| 483 | 2237-2239 | Chemical | denotes | P3 | ||
| 484 | 2656-2661 | Chemical | denotes | N-NTD | ||
| 485 | 2662-2664 | Chemical | denotes | P3 | ||
| 487 | 2921-2930 | Species | denotes | HCoV-OC43 | Tax:31631 | |
| 494 | 3218-3226 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 495 | 3253-3267 | Chemical | denotes | glutaraldehyde | MESH:D005976 | |
| 496 | 3400-3408 | Chemical | denotes | Tris-HCl | ||
| 497 | 3471-3493 | Chemical | denotes | sodium dodecyl sulfate | MESH:D012967 | |
| 498 | 3494-3508 | Chemical | denotes | polyacrylamide | MESH:C016679 | |
| 499 | 3530-3533 | Chemical | denotes | SDS | MESH:D012967 | |
| 504 | 3694-3702 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 505 | 3704-3708 | Chemical | denotes | -NTD | ||
| 506 | 4153-4161 | Chemical | denotes | PLATINUM | MESH:D010984 | |
| 507 | 3662-3673 | Disease | denotes | MERS N-NTDs | MESH:D018352 | |
| 511 | 4320-4328 | Chemical | denotes | Tris-HCl | ||
| 512 | 4349-4353 | Chemical | denotes | NaCl | MESH:D012965 | |
| 513 | 4467-4477 | Chemical | denotes | Tryptophan | MESH:D014364 | |
| 516 | 4782-4790 | Chemical | denotes | Tris-HCl | ||
| 517 | 4811-4815 | Chemical | denotes | NaCl | MESH:D012965 | |
| 522 | 5264-5272 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 523 | 5250-5258 | Disease | denotes | infected | MESH:D007239 | |
| 524 | 5525-5538 | Disease | denotes | MERS-infected | MESH:D018352 | |
| 525 | 5236-5238 | CellLine | denotes | E6 | CVCL:4582 | |
| 538 | 5794-5799 | Gene | denotes | SEC-3 | Gene:55763 | |
| 539 | 5882-5890 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 540 | 5897-5905 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 541 | 7148-7156 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 542 | 7182-7190 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 543 | 7243-7251 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 544 | 7583-7591 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 545 | 7620-7628 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 546 | 5908-5910 | Chemical | denotes | P3 | ||
| 547 | 5979-5981 | Chemical | denotes | P3 | ||
| 548 | 6029-6037 | Chemical | denotes | Tris-HCl | ||
| 549 | 6058-6062 | Chemical | denotes | NaCl | MESH:D012965 | |
| 551 | 7744-7759 | Disease | denotes | Viral Infection | MESH:D001102 | |
| 560 | 7926-7934 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 561 | 7840-7874 | Chemical | denotes | Dulbecco’s modified Eagle’s medium | ||
| 562 | 7876-7880 | Chemical | denotes | DMEM | ||
| 563 | 8085-8110 | Chemical | denotes | phosphate-buffered saline | ||
| 564 | 8112-8115 | Chemical | denotes | PBS | ||
| 565 | 7915-7924 | Disease | denotes | infection | MESH:D007239 | |
| 566 | 7972-7981 | Disease | denotes | infection | MESH:D007239 | |
| 567 | 7765-7767 | CellLine | denotes | E6 | CVCL:4582 | |
| 576 | 8329-8337 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 577 | 8504-8507 | Chemical | denotes | PBS | ||
| 578 | 8560-8567 | Chemical | denotes | agarose | MESH:D012685 | |
| 579 | 8636-8639 | Chemical | denotes | CO2 | MESH:D002245 | |
| 580 | 8689-8697 | Chemical | denotes | formalin | MESH:D005557 | |
| 581 | 8720-8734 | Chemical | denotes | crystal violet | MESH:D005840 | |
| 582 | 8421-8430 | Disease | denotes | agitation | MESH:D011595 | |
| 583 | 8228-8230 | CellLine | denotes | E6 | CVCL:4582 | |
| 594 | 9232-9237 | Gene | denotes | GAPDH | Gene:2597 | |
| 595 | 9268-9273 | Gene | denotes | GAPDH | Gene:2597 | |
| 596 | 9443-9448 | Gene | denotes | GAPDH | Gene:2597 | |
| 597 | 8846-8849 | Gene | denotes | Kit | Gene:103235672 | |
| 598 | 9021-9024 | Gene | denotes | Kit | Gene:103235672 | |
| 599 | 9307-9315 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 600 | 9348-9356 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 601 | 9470-9478 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 602 | 8788-8796 | Disease | denotes | infected | MESH:D007239 | |
| 603 | 8802-8804 | CellLine | denotes | E6 | CVCL:4582 | |
| 615 | 9645-9653 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 616 | 9888-9896 | Species | denotes | MERS-CoV | Tax:1335626 | |
| 617 | 9706-9722 | Chemical | denotes | paraformaldehyde | MESH:C003043 | |
| 618 | 9786-9798 | Chemical | denotes | Triton X-100 | MESH:D017830 | |
| 619 | 10055-10058 | Chemical | denotes | PBS | ||
| 620 | 10079-10093 | Chemical | denotes | Alex Fluor 568 | ||
| 621 | 10211-10240 | Chemical | denotes | 4′,6-Diamidino-2-phenylindole | MESH:C007293 | |
| 622 | 10242-10246 | Chemical | denotes | DAPI | MESH:C007293 | |
| 623 | 10269-10272 | Chemical | denotes | PBS | ||
| 624 | 9630-9639 | Disease | denotes | infection | MESH:D007239 | |
| 625 | 9547-9549 | CellLine | denotes | E6 | CVCL:4582 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32105468-26249685-61929524 | 474-476 | 26249685 | denotes | 46 |
| 32105468-26249685-61929525 | 1792-1794 | 26249685 | denotes | 46 |
| 32105468-12393927-61929526 | 2912-2914 | 12393927 | denotes | 47 |
| 32105468-15572765-61929527 | 3022-3024 | 15572765 | denotes | 48 |
| 32105468-19244385-61929528 | 4162-4164 | 19244385 | denotes | 31 |
| 32105468-25484842-61929529 | 6998-7000 | 25484842 | denotes | 50 |
| 32105468-26894667-61929530 | 7175-7177 | 26894667 | denotes | 27 |
| 32105468-30644840-61929531 | 7276-7278 | 30644840 | denotes | 23 |
| 32105468-22026976-61929532 | 9304-9306 | 22026976 | denotes | 53 |
| 32105468-26432410-61929533 | 9393-9395 | 26432410 | denotes | 54 |