PMC:7574920 / 45521-47229
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T167 | 0-3 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T168 | 102-105 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T169 | 309-312 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T170 | 358-361 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T171 | 610-616 | Body_part | denotes | genome | http://purl.org/sig/ont/fma/fma84116 |
| T172 | 965-968 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T173 | 1059-1063 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T174 | 1176-1180 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T175 | 1248-1251 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T176 | 1373-1376 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T177 | 1514-1517 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T178 | 1618-1622 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T179 | 1654-1658 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T180 | 1659-1662 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T100 | 593-601 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T101 | 1038-1042 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T102 | 1155-1159 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T382 | 258-263 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T383 | 324-331 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | devices |
| T384 | 408-409 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T385 | 496-497 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T386 | 686-692 | http://purl.obolibrary.org/obo/CLO_0001929 | denotes | Berlin |
| T387 | 860-863 | http://purl.obolibrary.org/obo/CLO_0008190 | denotes | Per |
| T388 | 969-974 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T389 | 1059-1063 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T390 | 1118-1124 | http://purl.obolibrary.org/obo/CLO_0001929 | denotes | Berlin |
| T391 | 1176-1180 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T392 | 1377-1382 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T393 | 1589-1590 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T394 | 1618-1622 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T395 | 1624-1625 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T396 | 1654-1658 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T397 | 1698-1699 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T86 | 646-654 | Chemical | denotes | reagents | http://purl.obolibrary.org/obo/CHEBI_33893 |
| T87 | 791-796 | Chemical | denotes | probe | http://purl.obolibrary.org/obo/CHEBI_50406 |
| T88 | 926-931 | Chemical | denotes | water | http://purl.obolibrary.org/obo/CHEBI_15377 |
| T89 | 1065-1068 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T90 | 1182-1185 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T91 | 1272-1275 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T92 | 1639-1648 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 296 | 1430-1433 | Gene | denotes | mix | Gene:83881 |
| 297 | 891-894 | Gene | denotes | mix | Gene:83881 |
| 298 | 593-603 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 299 | 1053-1056 | Species | denotes | CoV | Tax:11118 |
| 300 | 1170-1173 | Species | denotes | CoV | Tax:11118 |
| 301 | 926-931 | Chemical | denotes | water | MESH:D014867 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T271 | 18-20 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T272 | 555-557 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T273 | 1329-1342 | http://purl.obolibrary.org/obo/GO_0003968 | denotes | transcriptase |
| T274 | 1329-1342 | http://purl.obolibrary.org/obo/GO_0003899 | denotes | transcriptase |
| T275 | 1561-1563 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T276 | 1667-1669 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T331 | 0-25 | Sentence | denotes | RNA isolation and RT-qPCR |
| T332 | 26-373 | Sentence | denotes | The standard diagnostic pipeline of the hospital laboratory was as follows: RNA was isolated from nasopharyngeal and oropharyngeal swab specimens using QIAGEN kits (QIAGEN, Hilden, Germany); either automated on the QIASymphony (DSP Virus/Pathogen Mini Kits) or QIAcube (QIAamp Viral RNA Mini Kits) devices or manually (QIAamp Viral RNA Mini Kits). |
| T333 | 374-554 | Sentence | denotes | Please note that the QiaCube uses a sample volume of 140 μl and an elution volume of 100 μl, whereas the QiaSymphony uses a sample volume of 200 μl and an elution volume of 115 μl. |
| T334 | 555-702 | Sentence | denotes | RT-qPCR for the quantification of the SARS-CoV-2 viral genome was performed using kits and reagents from TIB MOLBIO Syntheselabor, Berlin, Germany. |
| T335 | 703-859 | Sentence | denotes | The kits were used according to the manufacturer’s instruction and contained the primer/probe sets developed based on the published Sarbeco primer set (15). |
| T336 | 860-1073 | Sentence | denotes | Per 20-μl reaction, the master mix contained 5.4 μl of RNAse free water, 4.0 μl of LightCycler Multiplex RNA Virus Master (Roche, Basel, Switzerland), 0.5 μl of LightMix Modular SARS and Wuhan CoV E gene (cat. no. |
| T337 | 1074-1190 | Sentence | denotes | 53-0776-96; TIB MOLBIOL Syntheselabor GmbH, Berlin, Germany) or LightMix Modular SARS and Wuhan CoV N gene (cat. no. |
| T338 | 1191-1280 | Sentence | denotes | 53-0775-96; TIB MOLBIOL), 0.5 μl of LightMix Modular EAV RNA Extraction Control (cat. no. |
| T339 | 1281-1418 | Sentence | denotes | 66-0909-96; TIB MOLBIOL), and 0.1 μl of reverse transcriptase enzyme (LightCycler Multiplex RNA Virus Master, Roche, Basel, Switzerland). |
| T340 | 1419-1537 | Sentence | denotes | The master mix (10 μl) was distributed per reaction into 96-well plates, and 10 μl of purified RNA was added per well. |
| T341 | 1538-1623 | Sentence | denotes | The performance of the RT-qPCR was validated using a positive control for the E gene. |
| T342 | 1624-1708 | Sentence | denotes | A total of 103 molecules of E gene RNA per RT-qPCR reaction correspond to a CT ≈ 30. |