PMC:7443692 / 68312-70536
Annnotations
LitCovid-sample-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T451 | 157-168 | Chemical | denotes | amino acids | http://purl.obolibrary.org/obo/CHEBI_33709 |
| T452 | 939-951 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T453 | 1082-1094 | Chemical | denotes | formaldehyde | http://purl.obolibrary.org/obo/CHEBI_16842 |
| T454 | 1471-1474 | Chemical | denotes | MVA | http://purl.obolibrary.org/obo/CHEBI_25351 |
LitCovid-sample-PD-NCBITaxon
| Id | Subject | Object | Predicate | Lexical cue | ncbi_taxonomy_id |
|---|---|---|---|---|---|
| T179 | 47-54 | Species | denotes | plasmid | NCBItxid:45202 |
| T180 | 64-74 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T181 | 94-100 | Species | denotes | SARS-2 | NCBItxid:2697049 |
| T182 | 814-820 | Species | denotes | SARS-2 | NCBItxid:2697049 |
| T183 | 917-928 | Species | denotes | Lassa virus | NCBItxid:11620 |
| T184 | 1235-1245 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T185 | 1360-1366 | Species | denotes | SARS-2 | NCBItxid:2697049 |
| T186 | 1369-1386 | Species | denotes | expression vector | NCBItxid:81076 |
| T187 | 1390-1403 | Species | denotes | measles virus | NCBItxid:11234 |
| T188 | 1471-1474 | Species | denotes | MVA | NCBItxid:467144 |
| T189 | 2123-2129 | Species | denotes | SARS-2 | NCBItxid:2697049 |
LitCovid-sample-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T452 | 0-107 | Sentence | denotes | 293T cells were transfected with an expression plasmid encoding SARS-CoV-2 Spike (pcDNAintron-SARS-2-SΔ19). |
| T453 | 108-220 | Sentence | denotes | To increase cell surface expression, the last 19 amino acids containing the Golgi retention signal were removed. |
| T454 | 221-302 | Sentence | denotes | Two SΔ19 constructs were compared, one started with Met1 and the other with Met2. |
| T455 | 303-436 | Sentence | denotes | Twenty-four h following transfection, cells were transduced with ppVSVΔG-VSV-G (particles that were pseudotyped with VSV-G in trans). |
| T456 | 437-519 | Sentence | denotes | One h following transduction cells were extensively washed and media was replaced. |
| T457 | 520-634 | Sentence | denotes | Supernatant containing particles were collected 12-24 h following transduction and cleared through centrifugation. |
| T458 | 635-690 | Sentence | denotes | Cleared supernatant was frozen at −80°C for future use. |
| T459 | 691-788 | Sentence | denotes | Target cells Vero E6 were seeded in 24-well plates (5x105 cells/mL) at a density of 80% coverage. |
| T460 | 789-978 | Sentence | denotes | The following day, ppVSV-SARS-2-S/GFP particles were transduced into target cells for 60 min, particles pseudotyped with VSV-G, Lassa virus GP, or no glycoprotein were included as controls. |
| T461 | 979-1199 | Sentence | denotes | 24 h following transduction, transduced cells were released from the plate with trypsin, fixed with 4% formaldehyde, and GFP-positive virus-transduced cells were quantified using flow cytometry (Bectin Dickson BD-LSRII). |
| T462 | 1200-1436 | Sentence | denotes | To quantify the ability of various SARS-CoV-2 S mutants to mediate fusion, effector cells (HEK293T) were transiently transfected with the indicated pcDNAintron-SARS-2-S expression vector or measles virus H and F (Brindley et al., 2014). |
| T463 | 1437-1557 | Sentence | denotes | Effector cells were infected with MVA-T7 four h following transduction to produce the T7 polymerase (Paal et al., 2009). |
| T464 | 1558-1790 | Sentence | denotes | Target cells naturally expressing the receptor ACE2 (Vero) or ACE2 negative cells (HEK293T) were transfected with pTM1-luciferase, which encodes for firefly luciferase under the control of a T7 promoter (Brindley and Plemper, 2010). |
| T465 | 1791-1896 | Sentence | denotes | 24 h following transfection, the target cells were lifted and added to the effector cells at a 1:1 ratio. |
| T466 | 1897-2027 | Sentence | denotes | 4 h following co-cultivation, cells were washed, lysed and luciferase levels were quantified using Promega’s Steady-Glo substrate. |
| T467 | 2028-2143 | Sentence | denotes | To visualize cell-to-cell fusion, Vero cells were co-transfected with pGFP and the pcDNAintron-SARS-2-S constructs. |
| T468 | 2144-2224 | Sentence | denotes | 24 h following transfection, syncytia was visualized by fluorescence microscopy. |
LitCovid-sample-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T111 | 64-74 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T112 | 94-98 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T113 | 814-818 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T114 | 1235-1245 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T115 | 1360-1364 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T116 | 1390-1397 | Disease | denotes | measles | http://purl.obolibrary.org/obo/MONDO_0004619 |
| T117 | 1471-1474 | Disease | denotes | MVA | http://purl.obolibrary.org/obo/MONDO_0012481 |
| T118 | 2123-2127 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-sample-UniProt
| Id | Subject | Object | Predicate | Lexical cue | uniprot_id |
|---|---|---|---|---|---|
| T5723 | 273-277 | Protein | denotes | Met1 | https://www.uniprot.org/uniprot/Q9QXX6|https://www.uniprot.org/uniprot/Q9CSC6|https://www.uniprot.org/uniprot/Q80ZU3|https://www.uniprot.org/uniprot/P97413|https://www.uniprot.org/uniprot/P13864 |
| T5728 | 297-301 | Protein | denotes | Met2 | https://www.uniprot.org/uniprot/O55055|https://www.uniprot.org/uniprot/O35212 |
| T5730 | 939-951 | Protein | denotes | glycoprotein | https://www.uniprot.org/uniprot/Q9QSP1|https://www.uniprot.org/uniprot/Q9QJT6|https://www.uniprot.org/uniprot/Q9JGT4|https://www.uniprot.org/uniprot/Q9IPJ6|https://www.uniprot.org/uniprot/Q9DIC6|https://www.uniprot.org/uniprot/Q91DS0|https://www.uniprot.org/uniprot/Q91C28|https://www.uniprot.org/uniprot/Q8QQA2|https://www.uniprot.org/uniprot/Q8QPE5|https://www.uniprot.org/uniprot/Q8QPE4|https://www.uniprot.org/uniprot/Q8QPE3|https://www.uniprot.org/uniprot/Q8JTH0|https://www.uniprot.org/uniprot/Q8BDV6|https://www.uniprot.org/uniprot/Q8B6J6|https://www.uniprot.org/uniprot/Q8B0I1|https://www.uniprot.org/uniprot/Q8B0H6|https://www.uniprot.org/uniprot/Q8B0H1|https://www.uniprot.org/uniprot/Q89669|https://www.uniprot.org/uniprot/Q85213|https://www.uniprot.org/uniprot/Q82706|https://www.uniprot.org/uniprot/Q82683|https://www.uniprot.org/uniprot/Q82020|https://www.uniprot.org/uniprot/Q787B5|https://www.uniprot.org/uniprot/Q77SK0|https://www.uniprot.org/uniprot/Q77N36|https://www.uniprot.org/uniprot/Q76G52|https://www.uniprot.org/uniprot/Q75T09|https://www.uniprot.org/uniprot/Q6X1D5|https://www.uniprot.org/uniprot/Q6X1D1|https://www.uniprot.org/uniprot/Q6TYA0|https://www.uniprot.org/uniprot/Q6E0W7|https://www.uniprot.org/uniprot/Q66T62|https://www.uniprot.org/uniprot/Q5VKP3|https://www.uniprot.org/uniprot/Q5VKN9|https://www.uniprot.org/uniprot/Q5K2K4|https://www.uniprot.org/uniprot/Q5IX93|https://www.uniprot.org/uniprot/Q5IX92|https://www.uniprot.org/uniprot/Q5IX91|https://www.uniprot.org/uniprot/Q5IX90|https://www.uniprot.org/uniprot/Q5IX89|https://www.uniprot.org/uniprot/Q5IX88|https://www.uniprot.org/uniprot/Q5IX87|https://www.uniprot.org/uniprot/Q5GA86|https://www.uniprot.org/uniprot/Q58FH1|https://www.uniprot.org/uniprot/Q4VKV3|https://www.uniprot.org/uniprot/Q4F900|https://www.uniprot.org/uniprot/Q49LL3|https://www.uniprot.org/uniprot/Q49IU2|https://www.uniprot.org/uniprot/Q49IU1|https://www.uniprot.org/uniprot/Q49IT9|https://www.uniprot.org/uniprot/Q49IT8|https://www.uniprot.org/uniprot/Q49AV0|https://www.uniprot.org/uniprot/Q0GBY1|https://www.uniprot.org/uniprot/Q0GBX6|https://www.uniprot.org/uniprot/Q08089|https://www.uniprot.org/uniprot/P32595|https://www.uniprot.org/uniprot/P32550|https://www.uniprot.org/uniprot/P19462|https://www.uniprot.org/uniprot/P16288|https://www.uniprot.org/uniprot/P15199|https://www.uniprot.org/uniprot/P13180|https://www.uniprot.org/uniprot/P0C572|https://www.uniprot.org/uniprot/P08667|https://www.uniprot.org/uniprot/P08163|https://www.uniprot.org/uniprot/P07923|https://www.uniprot.org/uniprot/P04884|https://www.uniprot.org/uniprot/P04883|https://www.uniprot.org/uniprot/P04882|https://www.uniprot.org/uniprot/P03524|https://www.uniprot.org/uniprot/P03522|https://www.uniprot.org/uniprot/O92284|https://www.uniprot.org/uniprot/O56677|https://www.uniprot.org/uniprot/O10236|https://www.uniprot.org/uniprot/J7HBH4|https://www.uniprot.org/uniprot/D8V075|https://www.uniprot.org/uniprot/A7WNB3|https://www.uniprot.org/uniprot/A4UHQ6|https://www.uniprot.org/uniprot/A4UHQ1|https://www.uniprot.org/uniprot/A3RM22|https://www.uniprot.org/uniprot/A3F5R8|https://www.uniprot.org/uniprot/A3F5R3|https://www.uniprot.org/uniprot/A3F5Q8|https://www.uniprot.org/uniprot/A3F5N3|https://www.uniprot.org/uniprot/A3F5M3|https://www.uniprot.org/uniprot/A3F5L8 |
| T5815 | 1059-1066 | Protein | denotes | trypsin | https://www.uniprot.org/uniprot/P83348|https://www.uniprot.org/uniprot/P81524|https://www.uniprot.org/uniprot/P81071|https://www.uniprot.org/uniprot/P70059|https://www.uniprot.org/uniprot/P51588|https://www.uniprot.org/uniprot/P35051|https://www.uniprot.org/uniprot/P35050|https://www.uniprot.org/uniprot/P35048|https://www.uniprot.org/uniprot/P35034|https://www.uniprot.org/uniprot/P19799|https://www.uniprot.org/uniprot/P00764|https://www.uniprot.org/uniprot/P00761|https://www.uniprot.org/uniprot/O97399 |
| T5828 | 1605-1609 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
| T5829 | 1620-1624 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
| T5830 | 1677-1687 | Protein | denotes | luciferase | https://www.uniprot.org/uniprot/Q27757|https://www.uniprot.org/uniprot/Q27755|https://www.uniprot.org/uniprot/Q26304|https://www.uniprot.org/uniprot/Q01158|https://www.uniprot.org/uniprot/P13129|https://www.uniprot.org/uniprot/P08659|https://www.uniprot.org/uniprot/O02653 |
| T5837 | 1715-1725 | Protein | denotes | luciferase | https://www.uniprot.org/uniprot/Q27757|https://www.uniprot.org/uniprot/Q27755|https://www.uniprot.org/uniprot/Q26304|https://www.uniprot.org/uniprot/Q01158|https://www.uniprot.org/uniprot/P13129|https://www.uniprot.org/uniprot/P08659|https://www.uniprot.org/uniprot/O02653 |
| T5844 | 1956-1966 | Protein | denotes | luciferase | https://www.uniprot.org/uniprot/Q27757|https://www.uniprot.org/uniprot/Q27755|https://www.uniprot.org/uniprot/Q26304|https://www.uniprot.org/uniprot/Q01158|https://www.uniprot.org/uniprot/P13129|https://www.uniprot.org/uniprot/P08659|https://www.uniprot.org/uniprot/O02653 |
LitCovid-sample-PD-IDO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T165 | 5-10 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T166 | 120-124 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell |
| T167 | 341-346 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T168 | 466-471 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T169 | 698-703 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T170 | 749-754 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T171 | 865-870 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T172 | 923-928 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T173 | 1019-1024 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T174 | 1113-1118 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T175 | 1130-1135 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T176 | 1284-1289 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T177 | 1398-1403 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T178 | 1446-1451 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T179 | 1457-1465 | http://purl.obolibrary.org/obo/IDO_0000586 | denotes | infected |
| T180 | 1565-1570 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T181 | 1634-1639 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T182 | 1831-1836 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T183 | 1875-1880 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T184 | 1927-1932 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
| T185 | 2041-2045 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell |
| T186 | 2049-2053 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell |
| T187 | 2067-2072 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
LitCovid-sample-PD-FMA
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T224 | 5-10 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T225 | 120-132 | Body_part | denotes | cell surface | http://purl.org/sig/ont/fma/fma67653 |
| T226 | 120-124 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T227 | 157-168 | Body_part | denotes | amino acids | http://purl.org/sig/ont/fma/fma82739 |
| T228 | 341-346 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T229 | 466-471 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T230 | 698-703 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T231 | 749-754 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T232 | 865-870 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T233 | 939-951 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T234 | 1019-1024 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T235 | 1130-1135 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T236 | 1284-1289 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T237 | 1446-1451 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T238 | 1565-1570 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T239 | 1634-1639 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T240 | 1831-1836 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T241 | 1875-1880 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T242 | 1927-1932 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T243 | 2041-2045 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T244 | 2049-2053 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T245 | 2067-2072 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
LitCovid-sample-PD-GO-BP-0
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T135 | 190-199 | http://purl.obolibrary.org/obo/GO_0051235 | denotes | retention |
| T136 | 453-465 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T137 | 586-598 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T138 | 994-1006 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T139 | 1495-1507 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T140 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0000747 | denotes | cell fusion |
| T141 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0000768 | denotes | cell fusion |
| T142 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0045026 | denotes | cell fusion |
LitCovid-sample-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T128 | 190-199 | http://purl.obolibrary.org/obo/GO_0051235 | denotes | retention |
| T129 | 453-465 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T130 | 586-598 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T131 | 994-1006 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T132 | 1495-1507 | http://purl.obolibrary.org/obo/GO_0009293 | denotes | transduction |
| T133 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0140253 | denotes | cell fusion |
| T134 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0045026 | denotes | cell fusion |
| T135 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0000768 | denotes | cell fusion |
| T136 | 2049-2060 | http://purl.obolibrary.org/obo/GO_0000747 | denotes | cell fusion |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32841605-25157143-19659574 | 1430-1434 | 25157143 | denotes | 2014 |
| 32841605-19656895-19659575 | 1551-1555 | 19656895 | denotes | 2009 |
| 32841605-20861270-19659576 | 1784-1788 | 20861270 | denotes | 2010 |