PMC:7574920 / 57782-58709 JSONTXT

Annnotations TAB JSON ListView MergeView

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7574920","sourcedb":"PMC","sourceid":"7574920","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7574920","text":"Statistical analysis\nExcept where otherwise noted, all data were analyzed with R (46) using the tidyverse (47) and ggplot2 (48) system or with GraphPad Prism. Sensitivity and specificity values were obtained from count tables as follows: Specificity of the RT-LAMP assay was calculated as the fraction of RT-qPCR–negative samples that were also negative in the RT-LAMP assay. Sensitivity for a given CT interval was calculated as the fraction of all samples with an RT-qPCR CT value in that interval that was positive in the RT-LAMP assay. In both cases, 95% confidence intervals were calculated by interpreting the fractions of counts as binomial rates and then using Wilson’s method for binomial confidence intervals as implemented in the R package binom (49). The R code used to perform analyses and produce figures can be found on GitHub, together with all data tables: https://github.com/anders-biostat/LAMP-Paper-Figures.","divisions":[{"label":"title","span":{"begin":0,"end":20}}],"tracks":[{"project":"LitCovid-PD-CLO","denotations":[{"id":"T463","span":{"begin":124,"end":126},"obj":"http://purl.obolibrary.org/obo/CLO_0001382"},{"id":"T464","span":{"begin":392,"end":393},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"attributes":[{"subj":"T463","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T464","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"397","span":{"begin":669,"end":675},"obj":"Disease"}],"attributes":[{"id":"A397","pred":"tao:has_database_id","subj":"397","obj":"MESH:D006527"},{"subj":"397","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":"T303","span":{"begin":257,"end":259},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T304","span":{"begin":305,"end":307},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T305","span":{"begin":361,"end":363},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T306","span":{"begin":466,"end":468},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T307","span":{"begin":525,"end":527},"obj":"http://purl.obolibrary.org/obo/GO_0001171"}],"attributes":[{"subj":"T303","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T304","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T305","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T306","pred":"source","obj":"LitCovid-PD-GO-BP"},{"subj":"T307","pred":"source","obj":"LitCovid-PD-GO-BP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T415","span":{"begin":0,"end":20},"obj":"Sentence"},{"id":"T416","span":{"begin":21,"end":158},"obj":"Sentence"},{"id":"T417","span":{"begin":159,"end":237},"obj":"Sentence"},{"id":"T418","span":{"begin":238,"end":375},"obj":"Sentence"},{"id":"T419","span":{"begin":376,"end":539},"obj":"Sentence"},{"id":"T420","span":{"begin":540,"end":762},"obj":"Sentence"},{"id":"T421","span":{"begin":763,"end":927},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T415","pred":"source","obj":"LitCovid-sentences"},{"subj":"T416","pred":"source","obj":"LitCovid-sentences"},{"subj":"T417","pred":"source","obj":"LitCovid-sentences"},{"subj":"T418","pred":"source","obj":"LitCovid-sentences"},{"subj":"T419","pred":"source","obj":"LitCovid-sentences"},{"subj":"T420","pred":"source","obj":"LitCovid-sentences"},{"subj":"T421","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-CLO","color":"#9e93ec","default":true},{"id":"LitCovid-PubTator","color":"#a1ec93"},{"id":"LitCovid-PD-GO-BP","color":"#ec93bb"},{"id":"LitCovid-sentences","color":"#93d5ec"}]}]}}