PMC:7574920 / 38152-39226
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7574920","sourcedb":"PMC","sourceid":"7574920","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7574920","text":"With its good sensitivity for samples up to CT ≈ 30, the colorimetric RT-LAMP assay has several advantages: It is fast, inexpensive, and it can be evaluated without any equipment. RT-LAMP reactions also appear to be less sensitive to contaminants in the samples than RT-qPCR, but care has to be taken that the samples used do not alter the pH as the colorimetric RT-LAMP assay is performed under conditions of weak pH buffering. Some clinical samples contain contaminants that can lead to acidification of the reaction independent of the presence of a template RNA if too much sample is added. Diagnostic RT-qPCR tests usually include a technical internal control, i.e., another RNA species, which is spiked into all samples and which is detected independent of the gene of interest to safeguard against the possibility of a general reaction failure within a sample tube. It would be desirable to have a similar precaution for the RT-LAMP assay. A multiplexed fluorescence readout might provide this (34) but comes at the expense of the simplicity of a colorimetric readout.","tracks":[{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T147","span":{"begin":561,"end":564},"obj":"Body_part"},{"id":"T148","span":{"begin":679,"end":682},"obj":"Body_part"},{"id":"T149","span":{"begin":766,"end":770},"obj":"Body_part"}],"attributes":[{"id":"A147","pred":"fma_id","subj":"T147","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A148","pred":"fma_id","subj":"T148","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A149","pred":"fma_id","subj":"T149","obj":"http://purl.org/sig/ont/fma/fma74402"},{"subj":"T147","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T148","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T149","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T8","span":{"begin":866,"end":870},"obj":"Body_part"}],"attributes":[{"id":"A8","pred":"uberon_id","subj":"T8","obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"subj":"T8","pred":"source","obj":"LitCovid-PD-UBERON"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T325","span":{"begin":84,"end":87},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T326","span":{"begin":285,"end":288},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T327","span":{"begin":550,"end":551},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T328","span":{"begin":613,"end":618},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T329","span":{"begin":635,"end":636},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T330","span":{"begin":766,"end":770},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T331","span":{"begin":823,"end":824},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T332","span":{"begin":857,"end":858},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T333","span":{"begin":866,"end":870},"obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"id":"T334","span":{"begin":902,"end":903},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T335","span":{"begin":946,"end":947},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T336","span":{"begin":1001,"end":1003},"obj":"http://purl.obolibrary.org/obo/CLO_0001302"},{"id":"T337","span":{"begin":1051,"end":1052},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"attributes":[{"subj":"T325","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T326","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T327","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T328","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T329","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T330","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T331","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T332","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T333","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T334","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T335","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T336","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T337","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T78","span":{"begin":234,"end":246},"obj":"Chemical"},{"id":"T79","span":{"begin":459,"end":471},"obj":"Chemical"},{"id":"T80","span":{"begin":552,"end":564},"obj":"Chemical"}],"attributes":[{"id":"A78","pred":"chebi_id","subj":"T78","obj":"http://purl.obolibrary.org/obo/CHEBI_143130"},{"id":"A79","pred":"chebi_id","subj":"T79","obj":"http://purl.obolibrary.org/obo/CHEBI_143130"},{"id":"A80","pred":"chebi_id","subj":"T80","obj":"http://purl.obolibrary.org/obo/CHEBI_33699"},{"subj":"T78","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T79","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T80","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"261","span":{"begin":415,"end":417},"obj":"Gene"},{"id":"262","span":{"begin":340,"end":342},"obj":"Gene"},{"id":"263","span":{"begin":833,"end":849},"obj":"Disease"}],"attributes":[{"id":"A261","pred":"tao:has_database_id","subj":"261","obj":"Gene:5053"},{"id":"A262","pred":"tao:has_database_id","subj":"262","obj":"Gene:5053"},{"id":"A263","pred":"tao:has_database_id","subj":"263","obj":"MESH:D006333"},{"subj":"261","pred":"source","obj":"LitCovid-PubTator"},{"subj":"262","pred":"source","obj":"LitCovid-PubTator"},{"subj":"263","pred":"source","obj":"LitCovid-PubTator"}],"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_"}]},{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T234","span":{"begin":70,"end":72},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T235","span":{"begin":180,"end":182},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T236","span":{"begin":267,"end":269},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T237","span":{"begin":363,"end":365},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T238","span":{"begin":489,"end":502},"obj":"http://purl.obolibrary.org/obo/GO_0045851"},{"id":"T239","span":{"begin":605,"end":607},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T240","span":{"begin":931,"end":933},"obj":"http://purl.obolibrary.org/obo/GO_0001171"}],"attributes":[{"subj":"T234","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T235","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T236","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T237","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T238","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T239","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T240","pred":"source","obj":"LitCovid-PD-GO-BP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T285","span":{"begin":0,"end":107},"obj":"Sentence"},{"id":"T286","span":{"begin":108,"end":179},"obj":"Sentence"},{"id":"T287","span":{"begin":180,"end":428},"obj":"Sentence"},{"id":"T288","span":{"begin":429,"end":593},"obj":"Sentence"},{"id":"T289","span":{"begin":594,"end":871},"obj":"Sentence"},{"id":"T290","span":{"begin":872,"end":945},"obj":"Sentence"},{"id":"T291","span":{"begin":946,"end":1074},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T285","pred":"source","obj":"LitCovid-sentences"},{"subj":"T286","pred":"source","obj":"LitCovid-sentences"},{"subj":"T287","pred":"source","obj":"LitCovid-sentences"},{"subj":"T288","pred":"source","obj":"LitCovid-sentences"},{"subj":"T289","pred":"source","obj":"LitCovid-sentences"},{"subj":"T290","pred":"source","obj":"LitCovid-sentences"},{"subj":"T291","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-FMA-UBERON","color":"#93ecb8","default":true},{"id":"LitCovid-PD-UBERON","color":"#ec9e93"},{"id":"LitCovid-PD-CLO","color":"#93a2ec"},{"id":"LitCovid-PD-CHEBI","color":"#bcec93"},{"id":"LitCovid-PubTator","color":"#ec93d6"},{"id":"LitCovid-PD-GO-BP","color":"#93ece8"},{"id":"LitCovid-sentences","color":"#ecce93"}]}]}}