PMC:7574920 / 27290-28724 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7574920","sourcedb":"PMC","sourceid":"7574920","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7574920","text":"On the basis of these preliminary experiments, we decided to use swab samples either directly without any treatment (direct swab–to–RT-LAMP assay) or after heat treatment for 5 min at 95°C (hot swab–to–RT-LAMP assay). As an additional precaution, we kept the samples in the cold (using an ice-cold metal block) whenever possible. For testing large numbers of clinical samples, we performed the RT-LAMP assay using several 96-well plates. In total, we tested 209 different samples using the hot swab–to–RT-LAMP assay, and of these, 131 samples also were tested by the direct swab–to–RT-LAMP assay. Many samples were tested twice but using aliquots withdrawn at different time points (usually within 24 hours) from the swab samples stored at 4°C. This resulted in 235 direct swab–to–RT-LAMP assay measurements and 343 hot swab–to–RT-LAMP assay measurements (Fig. 5A). The hot swab–to–RT-LAMP assay detected a color change in the majority of samples with a CT \u003c 30 with high sensitivity, whereas the direct swab–to–RT-LAMP assay only exhibited a high sensitivity for samples with a CT \u003c 25 (Fig. 5 and Table 3). The heat treatment rendered the RT-LAMP assay more stringent as it reduced false positives and more sensitive for samples with a CT of 25 to 30. We found that some positive samples did not induce a color change but did so when assayed a second time. We therefore would recommend running this assay using technical duplicates.","tracks":[{"project":"LitCovid-PD-CLO","denotations":[{"id":"T244","span":{"begin":334,"end":341},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T245","span":{"begin":451,"end":457},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T246","span":{"begin":553,"end":559},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T247","span":{"begin":615,"end":621},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T248","span":{"begin":740,"end":743},"obj":"http://purl.obolibrary.org/obo/CLO_0001387"},{"id":"T249","span":{"begin":905,"end":906},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T250","span":{"begin":952,"end":953},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T251","span":{"begin":1041,"end":1042},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T252","span":{"begin":1077,"end":1078},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T253","span":{"begin":1236,"end":1237},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T254","span":{"begin":1305,"end":1306},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T255","span":{"begin":1344,"end":1345},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"attributes":[{"subj":"T244","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T245","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T246","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T247","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T248","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T249","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T250","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T251","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T252","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T253","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T254","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T255","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T159","span":{"begin":132,"end":134},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T160","span":{"begin":202,"end":204},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T161","span":{"begin":394,"end":396},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T162","span":{"begin":502,"end":504},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T163","span":{"begin":582,"end":584},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T164","span":{"begin":781,"end":783},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T165","span":{"begin":828,"end":830},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T166","span":{"begin":882,"end":884},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T167","span":{"begin":1012,"end":1014},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T168","span":{"begin":1141,"end":1143},"obj":"http://purl.obolibrary.org/obo/GO_0001171"}],"attributes":[{"subj":"T159","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T160","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T161","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T162","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T163","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T164","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T165","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T166","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T167","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T168","pred":"source","obj":"LitCovid-PD-GO-BP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T198","span":{"begin":0,"end":217},"obj":"Sentence"},{"id":"T199","span":{"begin":218,"end":329},"obj":"Sentence"},{"id":"T200","span":{"begin":330,"end":437},"obj":"Sentence"},{"id":"T201","span":{"begin":438,"end":596},"obj":"Sentence"},{"id":"T202","span":{"begin":597,"end":744},"obj":"Sentence"},{"id":"T203","span":{"begin":745,"end":865},"obj":"Sentence"},{"id":"T204","span":{"begin":866,"end":1108},"obj":"Sentence"},{"id":"T205","span":{"begin":1109,"end":1253},"obj":"Sentence"},{"id":"T206","span":{"begin":1254,"end":1358},"obj":"Sentence"},{"id":"T207","span":{"begin":1359,"end":1434},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T198","pred":"source","obj":"LitCovid-sentences"},{"subj":"T199","pred":"source","obj":"LitCovid-sentences"},{"subj":"T200","pred":"source","obj":"LitCovid-sentences"},{"subj":"T201","pred":"source","obj":"LitCovid-sentences"},{"subj":"T202","pred":"source","obj":"LitCovid-sentences"},{"subj":"T203","pred":"source","obj":"LitCovid-sentences"},{"subj":"T204","pred":"source","obj":"LitCovid-sentences"},{"subj":"T205","pred":"source","obj":"LitCovid-sentences"},{"subj":"T206","pred":"source","obj":"LitCovid-sentences"},{"subj":"T207","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-CLO","color":"#b3ec93","default":true},{"id":"LitCovid-PD-GO-BP","color":"#ec93cd"},{"id":"LitCovid-sentences","color":"#93e7ec"}]}]}}