PMC:7574920 / 45547-47229
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T168 | 76-79 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T169 | 283-286 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T170 | 332-335 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T171 | 584-590 | Body_part | denotes | genome | http://purl.org/sig/ont/fma/fma84116 |
| T172 | 939-942 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T173 | 1033-1037 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T174 | 1150-1154 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T175 | 1222-1225 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T176 | 1347-1350 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T177 | 1488-1491 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T178 | 1592-1596 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T179 | 1628-1632 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T180 | 1633-1636 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T100 | 567-575 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T101 | 1012-1016 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T102 | 1129-1133 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T382 | 232-237 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T383 | 298-305 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | devices |
| T384 | 382-383 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T385 | 470-471 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T386 | 660-666 | http://purl.obolibrary.org/obo/CLO_0001929 | denotes | Berlin |
| T387 | 834-837 | http://purl.obolibrary.org/obo/CLO_0008190 | denotes | Per |
| T388 | 943-948 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T389 | 1033-1037 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T390 | 1092-1098 | http://purl.obolibrary.org/obo/CLO_0001929 | denotes | Berlin |
| T391 | 1150-1154 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T392 | 1351-1356 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Virus |
| T393 | 1563-1564 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T394 | 1592-1596 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T395 | 1598-1599 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T396 | 1628-1632 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T397 | 1672-1673 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T86 | 620-628 | Chemical | denotes | reagents | http://purl.obolibrary.org/obo/CHEBI_33893 |
| T87 | 765-770 | Chemical | denotes | probe | http://purl.obolibrary.org/obo/CHEBI_50406 |
| T88 | 900-905 | Chemical | denotes | water | http://purl.obolibrary.org/obo/CHEBI_15377 |
| T89 | 1039-1042 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T90 | 1156-1159 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T91 | 1246-1249 | Chemical | denotes | cat | http://purl.obolibrary.org/obo/CHEBI_32402 |
| T92 | 1613-1622 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 296 | 1404-1407 | Gene | denotes | mix | Gene:83881 |
| 297 | 865-868 | Gene | denotes | mix | Gene:83881 |
| 298 | 567-577 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 299 | 1027-1030 | Species | denotes | CoV | Tax:11118 |
| 300 | 1144-1147 | Species | denotes | CoV | Tax:11118 |
| 301 | 900-905 | Chemical | denotes | water | MESH:D014867 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T272 | 529-531 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T273 | 1303-1316 | http://purl.obolibrary.org/obo/GO_0003968 | denotes | transcriptase |
| T274 | 1303-1316 | http://purl.obolibrary.org/obo/GO_0003899 | denotes | transcriptase |
| T275 | 1535-1537 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T276 | 1641-1643 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T332 | 0-347 | 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 | 348-528 | 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 | 529-676 | 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 | 677-833 | 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 | 834-1047 | 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 | 1048-1164 | Sentence | denotes | 53-0776-96; TIB MOLBIOL Syntheselabor GmbH, Berlin, Germany) or LightMix Modular SARS and Wuhan CoV N gene (cat. no. |
| T338 | 1165-1254 | Sentence | denotes | 53-0775-96; TIB MOLBIOL), 0.5 μl of LightMix Modular EAV RNA Extraction Control (cat. no. |
| T339 | 1255-1392 | Sentence | denotes | 66-0909-96; TIB MOLBIOL), and 0.1 μl of reverse transcriptase enzyme (LightCycler Multiplex RNA Virus Master, Roche, Basel, Switzerland). |
| T340 | 1393-1511 | 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 | 1512-1597 | Sentence | denotes | The performance of the RT-qPCR was validated using a positive control for the E gene. |
| T342 | 1598-1682 | Sentence | denotes | A total of 103 molecules of E gene RNA per RT-qPCR reaction correspond to a CT ≈ 30. |