PMC:7443692 / 48615-50316
Annnotations
LitCovid-sample-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T261 | 44-51 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
T262 | 194-201 | Chemical | denotes | proline | http://purl.obolibrary.org/obo/CHEBI_17203|http://purl.obolibrary.org/obo/CHEBI_26271 |
T264 | 558-565 | Chemical | denotes | Protein | http://purl.obolibrary.org/obo/CHEBI_16541 |
T265 | 611-614 | Chemical | denotes | NTA | http://purl.obolibrary.org/obo/CHEBI_39054|http://purl.obolibrary.org/obo/CHEBI_44557 |
T267 | 674-681 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
T268 | 1199-1202 | Chemical | denotes | DNA | http://purl.obolibrary.org/obo/CHEBI_16991 |
T269 | 1535-1538 | Chemical | denotes | CO2 | http://purl.obolibrary.org/obo/CHEBI_16526 |
T270 | 1598-1601 | Chemical | denotes | NTA | http://purl.obolibrary.org/obo/CHEBI_39054|http://purl.obolibrary.org/obo/CHEBI_44557 |
LitCovid-sample-PD-NCBITaxon
Id | Subject | Object | Predicate | Lexical cue | ncbi_taxonomy_id |
---|---|---|---|---|---|
T135 | 55-69 | Species | denotes | synthetic gene | NCBItxid:2005392 |
T136 | 98-108 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
T137 | 350-367 | Species | denotes | expression vector | NCBItxid:81076 |
T138 | 1101-1107 | Species | denotes | Fisher | NCBItxid:76720 |
T139 | 1153-1159 | Species | denotes | camera | NCBItxid:274080 |
T140 | 1221-1226 | Species | denotes | human | NCBItxid:9606 |
LitCovid-sample-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T332 | 0-427 | Sentence | denotes | To express a stabilized ectodomain of Spike protein, a synthetic gene encoding residues 1−1208 of SARS-CoV-2 Spike with the furin cleavage site (residues 682–685) replaced by a “GGSG” sequence, proline substitutions at residues 986 and 987, and a foldon trimerization motif followed by a C-terminal 6xHisTag was created and cloned into the mammalian expression vector pCMV-IRES-puro (Codex BioSolutions, Inc, Gaithersburg, MD). |
T333 | 428-557 | Sentence | denotes | The expression construct was transiently transfected in HEK293F cells using polyethylenimine (Polysciences, Inc, Warrington, PA). |
T334 | 558-802 | Sentence | denotes | Protein was purified from cell supernatants using Ni-NTA resin (QIAGEN, Germany), the eluted fractions containing S protein were pooled, concentrated, and further purified by gel filtration chromatography on a Superose 6 column (GE Healthcare). |
T335 | 803-900 | Sentence | denotes | Negative stain electron microscopy (EM) analysis was performed as described (Shaik et al., 2019). |
T336 | 901-1194 | Sentence | denotes | Briefly, analysis was performed at room temperature with a magnification of 52,000x and a defocus value of 1.5 μm following low-dose procedures, using a Philips Tecnai F20 electron microscope (Thermo Fisher Scientific) equipped with a Gatan US4000 CCD camera and operated at voltage of 200 kV. |
T337 | 1195-1340 | Sentence | denotes | The DNA fragment encoding human ACE2 (1-615) with a 6xHis tag at C terminus was synthesized by Genscript and cloned to the vector pCMV-IRES-puro. |
T338 | 1341-1422 | Sentence | denotes | The expression construct was transfected in HEK293F cells using polyethylenimine. |
T339 | 1423-1499 | Sentence | denotes | The medium was discarded and replaced with FreeStyle 293 medium after 6-8 h. |
T340 | 1500-1625 | Sentence | denotes | After incubation in 37°C with 5.5% CO2 for 5 days, the supernatant was collected and loaded to Ni-NTA resin for purification. |
T341 | 1626-1701 | Sentence | denotes | The elution was concentrated and further purified by a Superdex 200 column. |
LitCovid-sample-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T84 | 98-108 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-sample-UniProt
Id | Subject | Object | Predicate | Lexical cue | uniprot_id |
---|---|---|---|---|---|
T3545 | 38-51 | Protein | denotes | Spike protein | https://www.uniprot.org/uniprot/P31340 |
T3546 | 124-129 | Protein | denotes | furin | https://www.uniprot.org/uniprot/Q9UCZ5|https://www.uniprot.org/uniprot/Q6LBS3|https://www.uniprot.org/uniprot/Q6GTN6|https://www.uniprot.org/uniprot/Q28193|https://www.uniprot.org/uniprot/Q14336|https://www.uniprot.org/uniprot/P23377|https://www.uniprot.org/uniprot/P23188|https://www.uniprot.org/uniprot/P09958 |
T3554 | 672-681 | Protein | denotes | S protein | https://www.uniprot.org/uniprot/Q9UIP0|https://www.uniprot.org/uniprot/Q9UIN9|https://www.uniprot.org/uniprot/Q9UIN8|https://www.uniprot.org/uniprot/Q9UIN7|https://www.uniprot.org/uniprot/Q9UIN6|https://www.uniprot.org/uniprot/Q9UBH8|https://www.uniprot.org/uniprot/Q9NRH8|https://www.uniprot.org/uniprot/Q9NRH7|https://www.uniprot.org/uniprot/Q9NRH6|https://www.uniprot.org/uniprot/Q9NRH5|https://www.uniprot.org/uniprot/Q9NRH4|https://www.uniprot.org/uniprot/Q9NPG5|https://www.uniprot.org/uniprot/Q9NPE0|https://www.uniprot.org/uniprot/Q9NP52|https://www.uniprot.org/uniprot/Q95IF9|https://www.uniprot.org/uniprot/Q8N5P3|https://www.uniprot.org/uniprot/Q8IZU6|https://www.uniprot.org/uniprot/Q8IZU5|https://www.uniprot.org/uniprot/Q8IZU4|https://www.uniprot.org/uniprot/Q86Z04|https://www.uniprot.org/uniprot/Q7YR44|https://www.uniprot.org/uniprot/Q7LA71|https://www.uniprot.org/uniprot/Q7LA70|https://www.uniprot.org/uniprot/Q5STD2|https://www.uniprot.org/uniprot/Q5SQ85|https://www.uniprot.org/uniprot/Q1XI16|https://www.uniprot.org/uniprot/Q1XI12|https://www.uniprot.org/uniprot/Q15517|https://www.uniprot.org/uniprot/O43509|https://www.uniprot.org/uniprot/O19084|https://www.uniprot.org/uniprot/B0UYZ7|https://www.uniprot.org/uniprot/B0S7V2|https://www.uniprot.org/uniprot/A5A6L9 |
T3587 | 1227-1231 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
LitCovid-sample-PD-IDO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T150 | 139-143 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | site |
T151 | 492-497 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
T152 | 584-588 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell |
T153 | 1393-1398 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cells |
LitCovid-sample-PD-FMA
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T148 | 44-51 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
T149 | 65-69 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
T150 | 194-201 | Body_part | denotes | proline | http://purl.org/sig/ont/fma/fma82761 |
T151 | 492-497 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T152 | 558-565 | Body_part | denotes | Protein | http://purl.org/sig/ont/fma/fma67257 |
T153 | 584-588 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T154 | 674-681 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
T155 | 1199-1202 | Body_part | denotes | DNA | http://purl.org/sig/ont/fma/fma74412 |
T156 | 1393-1398 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
2_test
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
32841605-30542158-19659550 | 894-898 | 30542158 | denotes | 2019 |