PMC:7299399 / 43435-46293
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T198 | 101-105 | Body_part | denotes | Cell | http://purl.org/sig/ont/fma/fma68646 |
| T199 | 505-513 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T200 | 536-541 | Body_part | denotes | sugar | http://purl.org/sig/ont/fma/fma82737 |
| T201 | 583-593 | Body_part | denotes | amino acid | http://purl.org/sig/ont/fma/fma82739 |
| T202 | 626-644 | Body_part | denotes | glycosaminoglycans | http://purl.org/sig/ont/fma/fma63011 |
| T203 | 646-650 | Body_part | denotes | GAGs | http://purl.org/sig/ont/fma/fma63011 |
| T204 | 655-670 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T205 | 672-674 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T206 | 986-990 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T207 | 1103-1115 | Body_part | denotes | cell-surface | http://purl.org/sig/ont/fma/fma67653 |
| T208 | 1103-1107 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T209 | 1125-1140 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T210 | 1266-1270 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T211 | 1444-1449 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T212 | 1705-1710 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T213 | 1760-1767 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T214 | 1800-1813 | Body_part | denotes | cell membrane | http://purl.org/sig/ont/fma/fma63841 |
| T215 | 1800-1804 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T216 | 1973-1975 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T217 | 2080-2084 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T218 | 2312-2319 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T219 | 2605-2612 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T53 | 2080-2084 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T140 | 1079-1088 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T141 | 1386-1396 | Disease | denotes | stomatitis | http://purl.obolibrary.org/obo/MONDO_0004842 |
| T142 | 1675-1684 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T143 | 2085-2094 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T144 | 2323-2331 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T397 | 75-80 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T398 | 101-105 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | Cell |
| T399 | 144-145 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T400 | 176-177 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T401 | 317-318 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T402 | 413-420 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T403 | 716-721 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T404 | 966-973 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T405 | 986-990 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T406 | 1103-1107 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T407 | 1183-1188 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T408 | 1240-1245 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T409 | 1266-1270 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T410 | 1352-1357 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T411 | 1397-1402 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T412 | 1444-1449 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T413 | 1685-1690 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T414 | 1705-1710 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T415 | 1800-1804 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T416 | 1805-1813 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
| T417 | 1818-1819 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T418 | 2010-2017 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T419 | 2048-2053 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T420 | 2078-2079 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T421 | 2080-2084 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T422 | 2080-2084 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T423 | 2309-2311 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
| T424 | 2602-2604 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
| T425 | 2658-2663 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T426 | 2725-2726 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T337 | 342-348 | Chemical | denotes | corona | http://purl.obolibrary.org/obo/CHEBI_37409 |
| T338 | 505-513 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T339 | 583-593 | Chemical | denotes | amino acid | http://purl.obolibrary.org/obo/CHEBI_33709 |
| T340 | 583-588 | Chemical | denotes | amino | http://purl.obolibrary.org/obo/CHEBI_46882 |
| T341 | 589-593 | Chemical | denotes | acid | http://purl.obolibrary.org/obo/CHEBI_37527 |
| T342 | 626-644 | Chemical | denotes | glycosaminoglycans | http://purl.obolibrary.org/obo/CHEBI_18085 |
| T343 | 646-650 | Chemical | denotes | GAGs | http://purl.obolibrary.org/obo/CHEBI_18085 |
| T344 | 655-670 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T345 | 655-662 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T346 | 663-670 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T347 | 672-674 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
| T349 | 820-828 | Chemical | denotes | molecule | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T350 | 829-839 | Chemical | denotes | inhibitors | http://purl.obolibrary.org/obo/CHEBI_35222 |
| T351 | 919-922 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T352 | 995-999 | Chemical | denotes | Gold | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T353 | 1000-1003 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T354 | 1054-1064 | Chemical | denotes | inhibitors | http://purl.obolibrary.org/obo/CHEBI_35222 |
| T355 | 1125-1140 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T356 | 1125-1132 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T357 | 1133-1140 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T358 | 1225-1227 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T359 | 1228-1231 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T360 | 1494-1497 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T361 | 1546-1549 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T362 | 1611-1615 | Chemical | denotes | gold | http://purl.obolibrary.org/obo/CHEBI_29287|http://purl.obolibrary.org/obo/CHEBI_30050 |
| T364 | 1616-1619 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T365 | 1635-1637 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T370 | 1760-1767 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T371 | 1785-1787 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T376 | 1893-1902 | Chemical | denotes | antiviral | http://purl.obolibrary.org/obo/CHEBI_22587 |
| T377 | 1903-1906 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T378 | 1908-1910 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T379 | 1915-1925 | Chemical | denotes | iron oxide | http://purl.obolibrary.org/obo/CHEBI_50816|http://purl.obolibrary.org/obo/CHEBI_50820 |
| T381 | 1915-1919 | Chemical | denotes | iron | http://purl.obolibrary.org/obo/CHEBI_18248 |
| T382 | 1920-1925 | Chemical | denotes | oxide | http://purl.obolibrary.org/obo/CHEBI_25741|http://purl.obolibrary.org/obo/CHEBI_29356 |
| T384 | 1973-1975 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
| T386 | 2217-2220 | Chemical | denotes | NPs | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T387 | 2247-2257 | Chemical | denotes | antivirals | http://purl.obolibrary.org/obo/CHEBI_22587 |
| T388 | 2312-2319 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T389 | 2605-2612 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T390 | 2742-2749 | Chemical | denotes | carrier | http://purl.obolibrary.org/obo/CHEBI_78059 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T37 | 1386-1396 | Phenotype | denotes | stomatitis | http://purl.obolibrary.org/obo/HP_0010280 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T58 | 27-33 | http://purl.obolibrary.org/obo/GO_0098739 | denotes | Uptake |
| T59 | 27-33 | http://purl.obolibrary.org/obo/GO_0098657 | denotes | Uptake |
| T60 | 2501-2507 | http://purl.obolibrary.org/obo/GO_0098739 | denotes | uptake |
| T61 | 2501-2507 | http://purl.obolibrary.org/obo/GO_0098657 | denotes | uptake |
| T62 | 2558-2573 | http://purl.obolibrary.org/obo/GO_0051100 | denotes | inhibit binding |
| T63 | 2658-2681 | http://purl.obolibrary.org/obo/GO_0019048 | denotes | virus–host interactions |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T2 | 655-670 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T3 | 672-674 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T4 | 1125-1140 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T5 | 1973-1975 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T167 | 0-105 | Sentence | denotes | Interference with Cellular Uptake, Immobilization, and Inactivation of the Virus Outside of the Host Cell |
| T168 | 106-213 | Sentence | denotes | Nanomaterials can be synthesized with a high specific surface area of a few hundred square meters per gram. |
| T169 | 214-349 | Sentence | denotes | Therefore, dependent on the surface properties, nanomaterials efficiently adsorb biomolecules and form a so-called biomolecular corona. |
| T170 | 350-490 | Sentence | denotes | This passive, nontargeted adsorption might be utilized to bind viruses, provided that the selected nanomaterial is relatively biocompatible. |
| T171 | 491-994 | Sentence | denotes | Viral surface proteins are often modified by sugar moieties or encompass positively charged amino acid patches that bind to lectins or glycosaminoglycans (GAGs) of heparan sulfate (HS), respectively.32 Robust interactions of virus particles with these host receptors is ensured by multivalent binding, which is likely why single-molecule inhibitors often are not capable of efficiently perturbing this key event but multivalent NPs are superior to block binding of different viruses to the host cell.125 |
| T172 | 995-1189 | Sentence | denotes | Gold NPs capped with mercaptoethanesulfonate are effective inhibitors of HSV type 1 infection as they mimic cell-surface-receptor heparan sulfate and, therefore, competitively bind to the virus. |
| T173 | 1190-1295 | Sentence | denotes | Interestingly, polyvalent sulfated Au NPs inhibit virus binding to the host cell dependent on their size. |
| T174 | 1296-1473 | Sentence | denotes | Nanoparticles of diameters equal to and larger than the virus diameter (in this case, the stomatitis virus) more efficiently inhibit the binding to cells than smaller particles. |
| T175 | 1474-1711 | Sentence | denotes | Most likely, larger NPs efficiently cross-link virions, whereas smaller NPs simply decorate the viral surface.126 Papp et al. found that gold NPs decorated with SA effectively inhibited the binding of influenza virus to the target cells. |
| T176 | 1712-2258 | Sentence | denotes | In this case, viral recognition via its surface protein hemagglutinin of SA on the host cell membrane was a prerequisite for cellular entry.127 More recently, Cagno et al. reported antiviral NPs (Au and iron oxide core) with long and flexible linkers mimicking HS that strongly bind and inactivate viruses such as respiratory syncytial virus in vitro and in vivo in a lung infection model and even led to irreversible viral deformation.53 Hence, there is ample evidence that biocompatible, functionalized NPs can act as broad-spectrum antivirals. |
| T177 | 2259-2449 | Sentence | denotes | Notably, the receptor-binding domain of the spike S1 protein of SARS-CoV-2 binds not only to ACE2 but also to heparin128 and, thus, might be targeted by similar approaches as outlined above. |
| T178 | 2450-2858 | Sentence | denotes | One of the most recent strategies to inhibit viral uptake is based on administration of recombinant ACE2 to inhibit binding competitively via the spike S1 protein.21 Knowing that multivalency is key to block virus–host interactions reliably, researchers have speculated that a nanostructured carrier could not only improve delivery and cargo stability but also might dramatically enhance binding strength.129 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 654 | 536-541 | Chemical | denotes | sugar | MESH:D000073893 |
| 655 | 626-644 | Chemical | denotes | glycosaminoglycans | MESH:D006025 |
| 656 | 655-670 | Chemical | denotes | heparan sulfate | MESH:D006497 |
| 657 | 672-674 | Chemical | denotes | HS | MESH:D006497 |
| 673 | 1103-1124 | Gene | denotes | cell-surface-receptor | Gene:57126 |
| 674 | 2352-2356 | Gene | denotes | ACE2 | Gene:59272 |
| 675 | 1675-1690 | Species | denotes | influenza virus | Tax:11309 |
| 676 | 2026-2053 | Species | denotes | respiratory syncytial virus | Tax:12814 |
| 677 | 2323-2333 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 678 | 1016-1039 | Chemical | denotes | mercaptoethanesulfonate | MESH:D015080 |
| 679 | 1125-1140 | Chemical | denotes | heparan sulfate | MESH:D006497 |
| 680 | 1635-1637 | Chemical | denotes | SA | MESH:D012794 |
| 681 | 1785-1787 | Chemical | denotes | SA | MESH:D012794 |
| 682 | 1915-1925 | Chemical | denotes | iron oxide | MESH:C000499 |
| 683 | 2369-2376 | Chemical | denotes | heparin | MESH:D006493 |
| 684 | 1068-1088 | Disease | denotes | HSV type 1 infection | MESH:C536395 |
| 685 | 1386-1402 | Disease | denotes | stomatitis virus | MESH:D013280 |
| 686 | 2080-2094 | Disease | denotes | lung infection | MESH:D012141 |
| 687 | 2130-2147 | Disease | denotes | viral deformation | |
| 689 | 2550-2554 | Gene | denotes | ACE2 | Gene:59272 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32519842-27575283-158548 | 690-692 | 27575283 | denotes | 32 |
| 32519842-20394070-158549 | 991-994 | 20394070 | denotes | 125 |
| 32519842-24430614-158550 | 1584-1587 | 24430614 | denotes | 126 |
| 32519842-21104827-158551 | 1852-1855 | 21104827 | denotes | 127 |
| 32519842-29251725-158552 | 2148-2150 | 29251725 | denotes | 53 |
| 32519842-32333836-158553 | 2613-2615 | 32333836 | denotes | 21 |
| 32519842-32286790-158554 | 2855-2858 | 32286790 | denotes | 129 |