PMC:7235801 / 7833-10711
Annnotations
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
178 | 492-496 | Gene | denotes | RdRp | Gene:43740578 |
179 | 573-577 | Gene | denotes | RdRp | Gene:43740578 |
180 | 708-713 | Gene | denotes | ORF1b | Gene:43740578 |
181 | 718-719 | Gene | denotes | N | Gene:43740575 |
182 | 813-818 | Gene | denotes | Orf1b | Gene:43740578 |
183 | 898-903 | Gene | denotes | ORF1b | Gene:43740578 |
184 | 1270-1274 | Gene | denotes | RdRp | Gene:43740578 |
185 | 1275-1283 | Gene | denotes | helicase | Gene:164045 |
186 | 770-771 | Gene | denotes | N | Gene:43740575 |
187 | 340-350 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
188 | 390-403 | Species | denotes | coronaviruses | Tax:11118 |
189 | 426-436 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
190 | 731-741 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
191 | 988-996 | Species | denotes | SARS-CoV | Tax:694009 |
192 | 1086-1096 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
193 | 1102-1110 | Species | denotes | SARS-CoV | Tax:694009 |
194 | 1297-1307 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
195 | 1346-1351 | Species | denotes | human | Tax:9606 |
196 | 1352-1365 | Species | denotes | coronaviruses | Tax:11118 |
197 | 1729-1739 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
198 | 1942-1952 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
199 | 2588-2598 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
200 | 66-74 | Disease | denotes | COVID-19 | MESH:C000657245 |
201 | 1444-1452 | Disease | denotes | COVID-19 | MESH:C000657245 |
202 | 2320-2328 | Disease | denotes | COVID-19 | MESH:C000657245 |
203 | 2372-2392 | Disease | denotes | SARS-CoV-2 infection | MESH:C000657245 |
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T38 | 351-354 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T39 | 437-440 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T40 | 462-465 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T41 | 476-479 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T42 | 498-502 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
T43 | 517-521 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
T44 | 578-582 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
T45 | 772-776 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
T46 | 1516-1522 | Body_part | denotes | saliva | http://purl.org/sig/ont/fma/fma59862 |
T47 | 1524-1530 | Body_part | denotes | plasma | http://purl.org/sig/ont/fma/fma62970 |
T48 | 1536-1559 | Body_part | denotes | upper respiratory tract | http://purl.org/sig/ont/fma/fma45661 |
T49 | 2178-2184 | Body_part | denotes | genome | http://purl.org/sig/ont/fma/fma84116 |
T50 | 2693-2697 | Body_part | denotes | nose | http://purl.org/sig/ont/fma/fma46472 |
T51 | 2701-2707 | Body_part | denotes | throat | http://purl.org/sig/ont/fma/fma228738 |
LitCovid-PD-UBERON
Id | Subject | Object | Predicate | Lexical cue | uberon_id |
---|---|---|---|---|---|
T11 | 1516-1522 | Body_part | denotes | saliva | http://purl.obolibrary.org/obo/UBERON_0001836 |
T12 | 1536-1559 | Body_part | denotes | upper respiratory tract | http://purl.obolibrary.org/obo/UBERON_0001557 |
T13 | 1542-1559 | Body_part | denotes | respiratory tract | http://purl.obolibrary.org/obo/UBERON_0000065 |
T14 | 2693-2697 | Body_part | denotes | nose | http://purl.obolibrary.org/obo/UBERON_0000004 |
T15 | 2701-2707 | Body_part | denotes | throat | http://purl.obolibrary.org/obo/UBERON_0000341 |
LitCovid-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T64 | 66-74 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T65 | 340-348 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T66 | 426-434 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T67 | 731-739 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T68 | 988-996 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T69 | 1086-1094 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T70 | 1102-1110 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T71 | 1297-1305 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T72 | 1444-1452 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T73 | 1729-1737 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T74 | 1942-1950 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T75 | 2320-2328 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T76 | 2372-2380 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T77 | 2383-2392 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
T78 | 2588-2596 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T79 | 2645-2654 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T67 | 155-156 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T68 | 409-413 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T69 | 498-502 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
T70 | 517-521 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
T71 | 578-582 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
T72 | 619-626 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | testing |
T73 | 772-776 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
T74 | 844-848 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T75 | 1023-1030 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
T76 | 1288-1293 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
T77 | 1346-1351 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T78 | 1382-1389 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
T79 | 1508-1515 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | testing |
T80 | 1524-1530 | http://purl.obolibrary.org/obo/UBERON_0001969 | denotes | plasma |
T81 | 1703-1710 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test is |
T82 | 1740-1744 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T83 | 1793-1795 | http://purl.obolibrary.org/obo/CLO_0053799 | denotes | 45 |
T84 | 1843-1844 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T85 | 1895-1899 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T86 | 2030-2034 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T87 | 2049-2050 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T88 | 2189-2192 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
T89 | 2329-2333 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T90 | 2353-2355 | http://purl.obolibrary.org/obo/CLO_0050510 | denotes | 18 |
T91 | 2429-2437 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test was |
T92 | 2510-2511 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T93 | 2552-2556 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
T94 | 2626-2633 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
T95 | 2655-2656 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T96 | 2661-2662 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
T97 | 2693-2697 | http://www.ebi.ac.uk/efo/EFO_0000828 | denotes | nose |
T98 | 2725-2726 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T99 | 2750-2751 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T100 | 2842-2843 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T53 | 351-354 | Chemical | denotes | RNA | http://purl.obolibrary.org/obo/CHEBI_33697 |
T54 | 437-440 | Chemical | denotes | RNA | http://purl.obolibrary.org/obo/CHEBI_33697 |
T55 | 462-465 | Chemical | denotes | RNA | http://purl.obolibrary.org/obo/CHEBI_33697 |
T56 | 476-479 | Chemical | denotes | RNA | http://purl.obolibrary.org/obo/CHEBI_33697 |
T57 | 2797-2805 | Chemical | denotes | reagents | http://purl.obolibrary.org/obo/CHEBI_33893 |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T56 | 0-154 | Sentence | denotes | The most widely used IVD assays for the confirmatory diagnosis of COVID-19 are based on RT-PCR that have been employed globally to deal with the pandemic. |
T57 | 155-312 | Sentence | denotes | A novel and robust real-time RT-PCR assay was developed by Tib-Molbiol, Germany, in collaboration with various partners by the 2nd week of January 2020 [14]. |
T58 | 313-404 | Sentence | denotes | It was highly specific for SARS-CoV-2 RNA and did not cross-react with other coronaviruses. |
T59 | 405-510 | Sentence | denotes | The test detects the SARS-CoV-2 RNA via envelope (E) and RNA-dependent RNA polymerase (RdRp) gene assays. |
T60 | 511-627 | Sentence | denotes | The E-gene assay was used for first line screening, while the RdRp gene assay was employed for confirmatory testing. |
T61 | 628-765 | Sentence | denotes | In another approach, the researchers developed one-step RT-PCR assays to detect ORF1b and N regions of SARS-CoV-2 in 1 h and 15 min [15]. |
T62 | 766-849 | Sentence | denotes | The N gene assay was used for screening, while Orf1b was used as confirmatory test. |
T63 | 850-1031 | Sentence | denotes | However, as the assay involved the detection of ORF1b and N regions that are highly conserved among sarbecoviruses, it could also bind to SARS-CoV and other closely-related viruses. |
T64 | 1032-1190 | Sentence | denotes | The authors mentioned that they could distinguish the SARS-CoV-2 from SARS-CoV via sequence analysis of positive amplicons if the RT-PCR results are positive. |
T65 | 1191-1395 | Sentence | denotes | Of interest was the development of real-time RT-PCR assay for the detection of RdRp/helicase (H) genes of SARS-CoV-2, which did not cross-react with other human coronaviruses and respiratory viruses [16]. |
T66 | 1396-1568 | Sentence | denotes | Due to its high sensitivity, it can be used for COVID-19 detection in samples that have low viral loads and for testing saliva, plasma, and upper respiratory tract samples. |
T67 | 1569-1660 | Sentence | denotes | Many RT-PCR assays have already been developed by many companies and researchers worldwide. |
T68 | 1661-1836 | Sentence | denotes | The most prominent real-time RT-PCR rapid test is the Xpert® Xpress SARS-CoV-2 test by Cepheid, USA, which provides results in just 45 min using GenXpert benchtop system [17]. |
T69 | 1837-2025 | Sentence | denotes | It is a rapid and automated point-of-care (POC) molecular test that enables the qualitative detection of SARS-CoV-2 in nasopharyngeal swab, nasal wash, or aspirate specimens from suspects. |
T70 | 2026-2185 | Sentence | denotes | The test requires only a minute for sample preparation, employs Cepheid’s Xpert® Xpress cartridge technology, and targets multiple regions of the viral genome. |
T71 | 2186-2276 | Sentence | denotes | It has also received Food and Drug Administration (FDA) emergency use authorization (EUA). |
T72 | 2277-2424 | Sentence | denotes | Another prominent advance is the Vivalytic COVID-19 test by Bosch, Germany [18], which detects SARS-CoV-2 infection in suspects in less than 2.5 h. |
T73 | 2425-2503 | Sentence | denotes | The test was developed by Bosch in collaboration with Randox Laboratories, UK. |
T74 | 2504-2663 | Sentence | denotes | It is a fully automated and rapid POC molecular test that can simultaneously detect SARS-CoV-2 and nine other respiratory viruses, including influenza A and B. |
T75 | 2664-2806 | Sentence | denotes | The sample is taken from the nose or throat of suspect using a swab and placed inside a Vivalytic cartridge containing all the assay reagents. |
T76 | 2807-2878 | Sentence | denotes | The cartridge is then plugged into a small benchtop Vivalytic analyzer. |