PMC:7574920 / 295-1212 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T5","span":{"begin":432,"end":435},"obj":"Body_part"},{"id":"T6","span":{"begin":669,"end":672},"obj":"Body_part"},{"id":"T7","span":{"begin":805,"end":808},"obj":"Body_part"}],"attributes":[{"id":"A5","pred":"fma_id","subj":"T5","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A6","pred":"fma_id","subj":"T6","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A7","pred":"fma_id","subj":"T7","obj":"http://purl.org/sig/ont/fma/fma67095"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T1","span":{"begin":640,"end":645},"obj":"Body_part"}],"attributes":[{"id":"A1","pred":"uberon_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/UBERON_0002542"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T4","span":{"begin":67,"end":76},"obj":"Disease"},{"id":"T5","span":{"begin":86,"end":94},"obj":"Disease"},{"id":"T6","span":{"begin":519,"end":527},"obj":"Disease"},{"id":"T7","span":{"begin":658,"end":666},"obj":"Disease"}],"attributes":[{"id":"A4","pred":"mondo_id","subj":"T4","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"},{"id":"A5","pred":"mondo_id","subj":"T5","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A6","pred":"mondo_id","subj":"T6","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A7","pred":"mondo_id","subj":"T7","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T5","span":{"begin":34,"end":38},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T6","span":{"begin":230,"end":245},"obj":"http://purl.obolibrary.org/obo/OBI_0000968"},{"id":"T7","span":{"begin":379,"end":385},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T8","span":{"begin":508,"end":514},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T9","span":{"begin":571,"end":572},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T10","span":{"begin":646,"end":653},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T11","span":{"begin":709,"end":710},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T12","span":{"begin":797,"end":798},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T13","span":{"begin":835,"end":836},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-PubTator","denotations":[{"id":"13","span":{"begin":364,"end":367},"obj":"Gene"},{"id":"14","span":{"begin":56,"end":62},"obj":"Species"},{"id":"15","span":{"begin":86,"end":96},"obj":"Species"},{"id":"16","span":{"begin":97,"end":108},"obj":"Species"},{"id":"17","span":{"begin":658,"end":668},"obj":"Species"},{"id":"18","span":{"begin":67,"end":76},"obj":"Disease"},{"id":"19","span":{"begin":519,"end":527},"obj":"Disease"}],"attributes":[{"id":"A13","pred":"tao:has_database_id","subj":"13","obj":"Gene:1610"},{"id":"A14","pred":"tao:has_database_id","subj":"14","obj":"Tax:9606"},{"id":"A15","pred":"tao:has_database_id","subj":"15","obj":"Tax:2697049"},{"id":"A16","pred":"tao:has_database_id","subj":"16","obj":"Tax:11118"},{"id":"A17","pred":"tao:has_database_id","subj":"17","obj":"Tax:2697049"},{"id":"A18","pred":"tao:has_database_id","subj":"18","obj":"MESH:D007239"},{"id":"A19","pred":"tao:has_database_id","subj":"19","obj":"MESH:C000657245"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T2","span":{"begin":140,"end":161},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T3","span":{"begin":148,"end":161},"obj":"http://purl.obolibrary.org/obo/GO_0006351"},{"id":"T4","span":{"begin":163,"end":165},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T5","span":{"begin":390,"end":392},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T6","span":{"begin":553,"end":555},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T7","span":{"begin":622,"end":624},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T8","span":{"begin":761,"end":763},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T9","span":{"begin":881,"end":883},"obj":"http://purl.obolibrary.org/obo/GO_0001171"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}

{"project":"LitCovid-sentences","denotations":[{"id":"T4","span":{"begin":0,"end":109},"obj":"Sentence"},{"id":"T5","span":{"begin":110,"end":246},"obj":"Sentence"},{"id":"T6","span":{"begin":247,"end":363},"obj":"Sentence"},{"id":"T7","span":{"begin":364,"end":528},"obj":"Sentence"},{"id":"T8","span":{"begin":529,"end":673},"obj":"Sentence"},{"id":"T9","span":{"begin":674,"end":917},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"We need simple methods to rapidly test large numbers of people for infection with the SARS-CoV-2 coronavirus. Quantitative PCR (qPCR) after reverse transcription (RT), the standard method, is very sensitive but requires expensive instrumentation. Loop-mediated isothermal amplification (LAMP) is an alternative to qPCR that is faster and requires fewer resources. Dao Thi et al. tested the RT-LAMP assay on several hundred clinical RNA samples isolated from pharyngeal swabs collected from individuals being tested for COVID-19. They confirmed that the RT-LAMP assay was a simpler albeit less sensitive option compared to RT-qPCR for large-scale testing for SARS-CoV-2 RNA. These investigators also developed a simplified version of this method (direct swab–to–RT-LAMP assay) that did not require a prior RNA isolation step as well as a method for highly multiplexed sequencing of RT-LAMP reactions (LAMP-sequencing)."}