PMC:7068163 / 2338-3574
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7068163","sourcedb":"PMC","sourceid":"7068163","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7068163","text":"We initially used the protocol based on the E gene and RdRp gene developed by the German Consiliary Laboratory for Coronaviruses hosted at the Charité in Berlin [5]. Real-time RT-PCR was initially performed with the QuantiTect Virus +Rox Vial kit (QIAGEN, Hilden, Germany) on the Bio-Rad CFX96 Touch Real-Time PCR Detection System (Bio-Rad, Feldkirchen, Germany). The kit was chosen for its frequent and successful use in our laboratory with other assays and its immediate availability. Primers and probes were used as described [5] and provided by TIB Molbiol (Berlin, Germany). Control material was ordered from the European Virus Archive (EVAg) and consisted of synthetic Wuhan coronavirus 2019 E gene control (reference number 026N-03866) and SARS-CoV Frankfurt 1 RNA (reference number 004N-02005) [6]. In addition, the control of LightMix Modular Wuhan CoV RdRP-gene (TibMolbiol, Berlin, Germany) was used for the SARS-CoV-2 specific assay. Respiratory samples (nasopharyngeal swabs or sputum) were obtained from patients and contact persons. Sputum samples were diluted in 2 mL phosphate buffered saline (PBS). RNA was extracted using the QIAamp Bio Robot kit (QIAGEN) on a Hamilton Microlab Star (Hamilton, Bonaduz, Switzerland).","tracks":[{"project":"LitCovid-PubTator","denotations":[{"id":"45","span":{"begin":234,"end":237},"obj":"Gene"},{"id":"46","span":{"begin":698,"end":699},"obj":"Gene"},{"id":"47","span":{"begin":115,"end":128},"obj":"Species"},{"id":"48","span":{"begin":675,"end":692},"obj":"Species"},{"id":"49","span":{"begin":747,"end":755},"obj":"Species"},{"id":"50","span":{"begin":858,"end":861},"obj":"Species"},{"id":"51","span":{"begin":919,"end":929},"obj":"Species"},{"id":"52","span":{"begin":1018,"end":1026},"obj":"Species"},{"id":"53","span":{"begin":1039,"end":1046},"obj":"Species"},{"id":"54","span":{"begin":1084,"end":1109},"obj":"Chemical"},{"id":"55","span":{"begin":1111,"end":1114},"obj":"Chemical"}],"attributes":[{"id":"A45","pred":"tao:has_database_id","subj":"45","obj":"Gene:4335"},{"id":"A46","pred":"tao:has_database_id","subj":"46","obj":"Gene:43740570"},{"id":"A47","pred":"tao:has_database_id","subj":"47","obj":"Tax:11118"},{"id":"A48","pred":"tao:has_database_id","subj":"48","obj":"Tax:2697049"},{"id":"A49","pred":"tao:has_database_id","subj":"49","obj":"Tax:694009"},{"id":"A50","pred":"tao:has_database_id","subj":"50","obj":"Tax:11118"},{"id":"A51","pred":"tao:has_database_id","subj":"51","obj":"Tax:2697049"},{"id":"A52","pred":"tao:has_database_id","subj":"52","obj":"Tax:9606"},{"id":"A53","pred":"tao:has_database_id","subj":"53","obj":"Tax:9606"},{"subj":"45","pred":"source","obj":"LitCovid-PubTator"},{"subj":"46","pred":"source","obj":"LitCovid-PubTator"},{"subj":"47","pred":"source","obj":"LitCovid-PubTator"},{"subj":"48","pred":"source","obj":"LitCovid-PubTator"},{"subj":"49","pred":"source","obj":"LitCovid-PubTator"},{"subj":"50","pred":"source","obj":"LitCovid-PubTator"},{"subj":"51","pred":"source","obj":"LitCovid-PubTator"},{"subj":"52","pred":"source","obj":"LitCovid-PubTator"},{"subj":"53","pred":"source","obj":"LitCovid-PubTator"},{"subj":"54","pred":"source","obj":"LitCovid-PubTator"},{"subj":"55","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-FMA-UBERON","denotations":[{"id":"T1","span":{"begin":46,"end":50},"obj":"Body_part"},{"id":"T2","span":{"begin":60,"end":64},"obj":"Body_part"},{"id":"T3","span":{"begin":700,"end":704},"obj":"Body_part"},{"id":"T4","span":{"begin":768,"end":771},"obj":"Body_part"},{"id":"T5","span":{"begin":867,"end":871},"obj":"Body_part"},{"id":"T6","span":{"begin":991,"end":997},"obj":"Body_part"},{"id":"T7","span":{"begin":1048,"end":1054},"obj":"Body_part"},{"id":"T8","span":{"begin":1117,"end":1120},"obj":"Body_part"}],"attributes":[{"id":"A1","pred":"fma_id","subj":"T1","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A2","pred":"fma_id","subj":"T2","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A3","pred":"fma_id","subj":"T3","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A4","pred":"fma_id","subj":"T4","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A5","pred":"fma_id","subj":"T5","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A6","pred":"fma_id","subj":"T6","obj":"http://purl.org/sig/ont/fma/fma312401"},{"id":"A7","pred":"fma_id","subj":"T7","obj":"http://purl.org/sig/ont/fma/fma312401"},{"id":"A8","pred":"fma_id","subj":"T8","obj":"http://purl.org/sig/ont/fma/fma67095"},{"subj":"T1","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T2","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T3","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T4","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T5","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T6","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T7","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T8","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T1","span":{"begin":991,"end":997},"obj":"Body_part"},{"id":"T2","span":{"begin":1048,"end":1054},"obj":"Body_part"}],"attributes":[{"id":"A1","pred":"uberon_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/UBERON_0007311"},{"id":"A2","pred":"uberon_id","subj":"T2","obj":"http://purl.obolibrary.org/obo/UBERON_0007311"},{"subj":"T1","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T2","pred":"source","obj":"LitCovid-PD-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T15","span":{"begin":747,"end":755},"obj":"Disease"},{"id":"T16","span":{"begin":919,"end":927},"obj":"Disease"}],"attributes":[{"id":"A15","pred":"mondo_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A16","pred":"mondo_id","subj":"T16","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T15","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T16","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"L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