PMC:7784824 / 15551-16463 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"302","span":{"begin":691,"end":696},"obj":"Gene"},{"id":"334","span":{"begin":34,"end":42},"obj":"Species"},{"id":"335","span":{"begin":150,"end":160},"obj":"Species"},{"id":"336","span":{"begin":242,"end":250},"obj":"Species"},{"id":"337","span":{"begin":268,"end":276},"obj":"Species"},{"id":"338","span":{"begin":327,"end":334},"obj":"Species"},{"id":"339","span":{"begin":362,"end":370},"obj":"Species"},{"id":"340","span":{"begin":419,"end":427},"obj":"Species"},{"id":"341","span":{"begin":473,"end":481},"obj":"Species"},{"id":"342","span":{"begin":627,"end":635},"obj":"Species"},{"id":"343","span":{"begin":753,"end":763},"obj":"Species"},{"id":"344","span":{"begin":845,"end":855},"obj":"Species"},{"id":"345","span":{"begin":670,"end":680},"obj":"Species"},{"id":"346","span":{"begin":99,"end":107},"obj":"Disease"},{"id":"347","span":{"begin":553,"end":573},"obj":"Disease"}],"attributes":[{"id":"A302","pred":"tao:has_database_id","subj":"302","obj":"Gene:145270"},{"id":"A334","pred":"tao:has_database_id","subj":"334","obj":"Tax:9606"},{"id":"A335","pred":"tao:has_database_id","subj":"335","obj":"Tax:2697049"},{"id":"A336","pred":"tao:has_database_id","subj":"336","obj":"Tax:9606"},{"id":"A337","pred":"tao:has_database_id","subj":"337","obj":"Tax:9606"},{"id":"A338","pred":"tao:has_database_id","subj":"338","obj":"Tax:9606"},{"id":"A339","pred":"tao:has_database_id","subj":"339","obj":"Tax:9606"},{"id":"A340","pred":"tao:has_database_id","subj":"340","obj":"Tax:9606"},{"id":"A341","pred":"tao:has_database_id","subj":"341","obj":"Tax:9606"},{"id":"A342","pred":"tao:has_database_id","subj":"342","obj":"Tax:9606"},{"id":"A343","pred":"tao:has_database_id","subj":"343","obj":"Tax:2697049"},{"id":"A344","pred":"tao:has_database_id","subj":"344","obj":"Tax:2697049"},{"id":"A345","pred":"tao:has_database_id","subj":"345","obj":"Tax:2697049"},{"id":"A346","pred":"tao:has_database_id","subj":"346","obj":"MESH:C000657245"},{"id":"A347","pred":"tao:has_database_id","subj":"347","obj":"MESH:D012818"}],"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":"In our institution a total of 145 patients were hospitalized with an in-house laboratory confirmed COVID-19 diagnosis. In this group, the presence of SARS-CoV-2 was confirmed using RT-PCR on the first nasopharyngeal and/or throat swab in 132 patients (91%). Another 4 patients were diagnosed with a second nasopharyngeal and 1 patient with an anal swab. Next, 5 patients were found to be positive on BAL samples. Three patients remained negative on repetitive swabs. These patients were not eligible for a BAL sampling procedure or did not present with respiratory symptoms and as such serological testing was performed. All 3 patients were found to be positive for IgG SARS-CoV-2 serology (Prima Professional®). Given the high pre-test probability for SARS-Cov-2 in this prospective cohort and repetitive testing, the added diagnostic value of SARS-CoV-2 serology in providing a diagnosis in this cohort was 2%."}

{"project":"LitCovid-sentences","denotations":[{"id":"T171","span":{"begin":0,"end":118},"obj":"Sentence"},{"id":"T172","span":{"begin":119,"end":257},"obj":"Sentence"},{"id":"T173","span":{"begin":258,"end":353},"obj":"Sentence"},{"id":"T174","span":{"begin":354,"end":412},"obj":"Sentence"},{"id":"T175","span":{"begin":413,"end":466},"obj":"Sentence"},{"id":"T176","span":{"begin":467,"end":620},"obj":"Sentence"},{"id":"T177","span":{"begin":621,"end":712},"obj":"Sentence"},{"id":"T178","span":{"begin":713,"end":912},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"In our institution a total of 145 patients were hospitalized with an in-house laboratory confirmed COVID-19 diagnosis. In this group, the presence of SARS-CoV-2 was confirmed using RT-PCR on the first nasopharyngeal and/or throat swab in 132 patients (91%). Another 4 patients were diagnosed with a second nasopharyngeal and 1 patient with an anal swab. Next, 5 patients were found to be positive on BAL samples. Three patients remained negative on repetitive swabs. These patients were not eligible for a BAL sampling procedure or did not present with respiratory symptoms and as such serological testing was performed. All 3 patients were found to be positive for IgG SARS-CoV-2 serology (Prima Professional®). Given the high pre-test probability for SARS-Cov-2 in this prospective cohort and repetitive testing, the added diagnostic value of SARS-CoV-2 serology in providing a diagnosis in this cohort was 2%."}