PMC:7102556 / 4296-5903
Annnotations
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 106 | 1579-1583 | Gene | denotes | RdRp | Gene:43740578 |
| 107 | 1595-1596 | Gene | denotes | N | Gene:43740575 |
| 108 | 88-103 | Species | denotes | new coronavirus | Tax:2697049 |
| 109 | 268-277 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 110 | 309-317 | Species | denotes | patients | Tax:9606 |
| 111 | 359-368 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 112 | 397-408 | Species | denotes | coronavirus | Tax:11118 |
| 113 | 653-661 | Species | denotes | SARS-CoV | Tax:694009 |
| 114 | 666-674 | Species | denotes | MERS-CoV | Tax:1335626 |
| 115 | 949-958 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 116 | 959-967 | Species | denotes | patients | Tax:9606 |
| 117 | 1322-1330 | Species | denotes | MERS-CoV | Tax:1335626 |
| 118 | 1479-1488 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 119 | 345-353 | Disease | denotes | infected | MESH:D007239 |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T17 | 251-255 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T18 | 527-530 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T19 | 777-800 | Body_part | denotes | upper respiratory tract | http://purl.org/sig/ont/fma/fma45661 |
| T20 | 840-863 | Body_part | denotes | lower respiratory tract | http://purl.org/sig/ont/fma/fma45662 |
| T21 | 901-907 | Body_part | denotes | sputum | http://purl.org/sig/ont/fma/fma312401 |
| T22 | 1340-1344 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T23 | 1543-1547 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T24 | 1549-1552 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T25 | 1563-1566 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T26 | 1585-1589 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T27 | 1597-1601 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T10 | 777-800 | Body_part | denotes | upper respiratory tract | http://purl.obolibrary.org/obo/UBERON_0001557 |
| T11 | 783-800 | Body_part | denotes | respiratory tract | http://purl.obolibrary.org/obo/UBERON_0000065 |
| T12 | 840-863 | Body_part | denotes | lower respiratory tract | http://purl.obolibrary.org/obo/UBERON_0001558 |
| T13 | 846-863 | Body_part | denotes | respiratory tract | http://purl.obolibrary.org/obo/UBERON_0000065 |
| T14 | 901-907 | Body_part | denotes | sputum | http://purl.obolibrary.org/obo/UBERON_0007311 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T17 | 653-661 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T38 | 158-159 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T39 | 251-255 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T40 | 278-281 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T41 | 393-396 | http://purl.obolibrary.org/obo/NCBITaxon_9596 | denotes | pan |
| T42 | 417-422 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T43 | 439-441 | http://purl.obolibrary.org/obo/CLO_0053733 | denotes | 11 |
| T44 | 504-505 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T45 | 609-610 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T46 | 691-694 | http://purl.obolibrary.org/obo/CLO_0008497 | denotes | pS2 |
| T47 | 840-863 | http://purl.obolibrary.org/obo/UBERON_0001558 | denotes | lower respiratory tract |
| T48 | 1340-1344 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T49 | 1422-1427 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T50 | 1543-1547 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T51 | 1585-1589 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T52 | 1597-1601 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T20 | 6-19 | Chemical | denotes | nucleic acids | http://purl.obolibrary.org/obo/CHEBI_33696 |
| T21 | 14-19 | Chemical | denotes | acids | http://purl.obolibrary.org/obo/CHEBI_37527 |
| T22 | 227-240 | Chemical | denotes | nucleic acids | http://purl.obolibrary.org/obo/CHEBI_33696 |
| T23 | 235-240 | Chemical | denotes | acids | http://purl.obolibrary.org/obo/CHEBI_37527 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T2 | 444-465 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | Reverse transcription |
| T3 | 452-465 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
| T4 | 493-495 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T5 | 531-552 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | reverse transcription |
| T6 | 539-552 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
| T7 | 554-556 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T8 | 618-620 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T9 | 988-990 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T10 | 1000-1021 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | Reverse transcription |
| T11 | 1008-1021 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
| T12 | 1070-1072 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T13 | 1104-1125 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | reverse transcription |
| T14 | 1112-1125 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
| T15 | 1173-1175 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T16 | 1283-1285 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T29 | 0-57 | Sentence | denotes | Viral nucleic acids can also be used for early diagnosis. |
| T30 | 58-122 | Sentence | denotes | The following are some of the new coronavirus detection methods. |
| T31 | 123-241 | Sentence | denotes | Polymerase chain reaction (PCR) is a molecular biological diagnosis technology based on the sequence of nucleic acids. |
| T32 | 242-443 | Sentence | denotes | The full gene sequence of 2019-nCoV has now been obtained [10], so patients who are suspected of being infected with 2019-nCoV [8] can be diagnosed by pan-coronavirus PCR for virus identification [11]. |
| T33 | 444-608 | Sentence | denotes | Reverse transcription polymerase chain reaction (RT-PCR) is a technology combining RNA reverse transcription (RT) with polymerase chain amplification (PCR) of cDNA. |
| T34 | 609-743 | Sentence | denotes | A duplex RT-PCR assay can be used to detect SARS-CoV and MERS-CoV using pUC57SARS-pS2 and pGEM-MERSS2 as templates, respectively [12]. |
| T35 | 744-999 | Sentence | denotes | Also, samples collected from the upper respiratory tract (oropharyngeal and nasopharyngeal) and lower respiratory tract (endotracheal aspirate, expectorated sputum, or bronchoalveolar lavage) of suspected 2019-nCoV patients can be diagnosed by RT-PCR [8]. |
| T36 | 1000-1266 | Sentence | denotes | Reverse transcription-insulated isothermal polymerase chain reaction (RT-iiPCR), quantitative real-time reverse transcription polymerase chain reaction (qRT-PCR), Real-time RT-PCR (rtRT-PCR), and one-step rtRT-PCR were all further optimized [[13], [14], [15], [16]]. |
| T37 | 1267-1439 | Sentence | denotes | These optimized RT-PCR methods were used to detect the MERS-CoV envelope gene (upE) and the open reading frame 1a (ORF1a) or open reading frame 1b (ORF1b) genes separately. |
| T38 | 1440-1607 | Sentence | denotes | However, rtRT-PCR was used to identify 2019-nCoV through preliminary and validation detection of its E gene, RNA-dependent RNA polymerase (RdRp) gene, and N gene [17]. |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32017984-28220326-69697725 | 739-741 | 28220326 | denotes | 12 |
| 32017984-28807812-69697726 | 1243-1245 | 28807812 | denotes | 13 |
| 32017984-24153118-69697727 | 1249-1251 | 24153118 | denotes | 14 |
| 32017984-23041020-69697728 | 1255-1257 | 23041020 | denotes | 15 |
| 32017984-28191331-69697729 | 1261-1263 | 28191331 | denotes | 16 |