PMC:7068163 / 5546-6961 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7068163","sourcedb":"PMC","sourceid":"7068163","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7068163","text":"Table Comparison of two different one-step real-time RT-PCR systems with SARS-CoV-2 assays from Corman et al. [5] and a commercial test kit with kit-specific assays, Bavaria, February 2020\nReal-time RT-PCR system PCR efficiency (%)a, linearity (R2) Limit of detection (copies/reaction) Unspecific signals count in E gene assay in totalb Unspecific signals in E gene assay (%)b Run time (hours)\nQuantiTect Virus +Rox Vial kit (QIAGEN) ND ND 451/743(75/126 NC, 376/617 patient samples) 60.7 1:50\nSuperScript III One-step RT-PCR System with Platinum TaqDNA Polymerase (Invitrogen) 95 / 0,99c 50c 13/257(2/38 NC,11/219 patient samples) 5.1 1:28\nRealStar SARS-CoV-2 RT-PCR kit 1.0 (Altona) 125 / 0,97d 10d 0/111(0/38 NC, 0/73 patients samples) 0 2:15\nNC: negative control samples; ND: not determined.\na E = 10−1/slope − 1.\nb Indicated counts and percentage values of unspecific background signals in the SARS-CoV E gene assay are based on the total number of tested patient samples as well as the negative extraction and non-template controls.\nc Only for RdRp gene assays, tested with four replicates of SARS-CoV Frankfurt 1 RNA [6]; 10-fold serial dilutions were determined. For the E gene, the assay was not linear.\nd Only for the E gene, tested with two replicates of synthetic Wuhan coronavirus 2019 E gene control and SARS-CoV Frankfurt 1 RNA each [6]; 10-fold serial dilutions were determined.","divisions":[{"label":"label","span":{"begin":0,"end":5}},{"label":"caption","span":{"begin":7,"end":189}},{"label":"title","span":{"begin":7,"end":189}},{"label":"table","span":{"begin":190,"end":766}},{"label":"tr","span":{"begin":190,"end":399}},{"label":"th","span":{"begin":190,"end":213}},{"label":"th","span":{"begin":215,"end":250}},{"label":"th","span":{"begin":252,"end":288}},{"label":"th","span":{"begin":290,"end":340}},{"label":"th","span":{"begin":342,"end":381}},{"label":"th","span":{"begin":383,"end":399}},{"label":"tr","span":{"begin":400,"end":504}},{"label":"td","span":{"begin":400,"end":439}},{"label":"td","span":{"begin":441,"end":443}},{"label":"td","span":{"begin":445,"end":447}},{"label":"td","span":{"begin":449,"end":492}},{"label":"td","span":{"begin":494,"end":498}},{"label":"td","span":{"begin":500,"end":504}},{"label":"tr","span":{"begin":505,"end":656}},{"label":"td","span":{"begin":505,"end":588}},{"label":"td","span":{"begin":590,"end":600}},{"label":"td","span":{"begin":602,"end":605}},{"label":"td","span":{"begin":607,"end":645}},{"label":"td","span":{"begin":647,"end":650}},{"label":"td","span":{"begin":652,"end":656}},{"label":"tr","span":{"begin":657,"end":766}},{"label":"td","span":{"begin":657,"end":700}},{"label":"td","span":{"begin":702,"end":713}},{"label":"td","span":{"begin":715,"end":718}},{"label":"td","span":{"begin":720,"end":757}},{"label":"td","span":{"begin":759,"end":760}},{"label":"td","span":{"begin":762,"end":766}},{"label":"p","span":{"begin":767,"end":816}},{"label":"p","span":{"begin":817,"end":838}},{"label":"p","span":{"begin":839,"end":1059}},{"label":"p","span":{"begin":1060,"end":1233}}],"tracks":[{"project":"LitCovid-PubTator","denotations":[{"id":"87","span":{"begin":418,"end":421},"obj":"Gene"},{"id":"88","span":{"begin":476,"end":483},"obj":"Species"},{"id":"89","span":{"begin":629,"end":636},"obj":"Species"},{"id":"90","span":{"begin":666,"end":676},"obj":"Species"},{"id":"91","span":{"begin":740,"end":748},"obj":"Species"},{"id":"93","span":{"begin":74,"end":84},"obj":"Species"},{"id":"96","span":{"begin":920,"end":928},"obj":"Species"},{"id":"97","span":{"begin":982,"end":989},"obj":"Species"},{"id":"100","span":{"begin":1200,"end":1201},"obj":"Gene"},{"id":"101","span":{"begin":1120,"end":1128},"obj":"Species"},{"id":"106","span":{"begin":1249,"end":1250},"obj":"Gene"},{"id":"107","span":{"begin":1320,"end":1321},"obj":"Gene"},{"id":"108","span":{"begin":1297,"end":1314},"obj":"Species"},{"id":"109","span":{"begin":1339,"end":1347},"obj":"Species"}],"attributes":[{"id":"A87","pred":"tao:has_database_id","subj":"87","obj":"Gene:4335"},{"id":"A88","pred":"tao:has_database_id","subj":"88","obj":"Tax:9606"},{"id":"A89","pred":"tao:has_database_id","subj":"89","obj":"Tax:9606"},{"id":"A90","pred":"tao:has_database_id","subj":"90","obj":"Tax:2697049"},{"id":"A91","pred":"tao:has_database_id","subj":"91","obj":"Tax:9606"},{"id":"A93","pred":"tao:has_database_id","subj":"93","obj":"Tax:2697049"},{"id":"A96","pred":"tao:has_database_id","subj":"96","obj":"Tax:694009"},{"id":"A97","pred":"tao:has_database_id","subj":"97","obj":"Tax:9606"},{"id":"A100","pred":"tao:has_database_id","subj":"100","obj":"Gene:43740570"},{"id":"A101","pred":"tao:has_database_id","subj":"101","obj":"Tax:694009"},{"id":"A106","pred":"tao:has_database_id","subj":"106","obj":"Gene:43740570"},{"id":"A107","pred":"tao:has_database_id","subj":"107","obj":"Gene:43740570"},{"id":"A108","pred":"tao:has_database_id","subj":"108","obj":"Tax:2697049"},{"id":"A109","pred":"tao:has_database_id","subj":"109","obj":"Tax:694009"},{"subj":"87","pred":"source","obj":"LitCovid-PubTator"},{"subj":"88","pred":"source","obj":"LitCovid-PubTator"},{"subj":"89","pred":"source","obj":"LitCovid-PubTator"},{"subj":"90","pred":"source","obj":"LitCovid-PubTator"},{"subj":"91","pred":"source","obj":"LitCovid-PubTator"},{"subj":"93","pred":"source","obj":"LitCovid-PubTator"},{"subj":"96","pred":"source","obj":"LitCovid-PubTator"},{"subj":"97","pred":"source","obj":"LitCovid-PubTator"},{"subj":"100","pred":"source","obj":"LitCovid-PubTator"},{"subj":"101","pred":"source","obj":"LitCovid-PubTator"},{"subj":"106","pred":"source","obj":"LitCovid-PubTator"},{"subj":"107","pred":"source","obj":"LitCovid-PubTator"},{"subj":"108","pred":"source","obj":"LitCovid-PubTator"},{"subj":"109","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":"T16","span":{"begin":320,"end":324},"obj":"Body_part"},{"id":"T17","span":{"begin":366,"end":370},"obj":"Body_part"},{"id":"T18","span":{"begin":931,"end":935},"obj":"Body_part"},{"id":"T19","span":{"begin":1076,"end":1080},"obj":"Body_part"},{"id":"T20","span":{"begin":1141,"end":1144},"obj":"Body_part"},{"id":"T21","span":{"begin":1202,"end":1206},"obj":"Body_part"},{"id":"T22","span":{"begin":1251,"end":1255},"obj":"Body_part"},{"id":"T23","span":{"begin":1322,"end":1326},"obj":"Body_part"},{"id":"T24","span":{"begin":1360,"end":1363},"obj":"Body_part"}],"attributes":[{"id":"A16","pred":"fma_id","subj":"T16","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A17","pred":"fma_id","subj":"T17","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A18","pred":"fma_id","subj":"T18","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A19","pred":"fma_id","subj":"T19","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A20","pred":"fma_id","subj":"T20","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A21","pred":"fma_id","subj":"T21","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A22","pred":"fma_id","subj":"T22","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A23","pred":"fma_id","subj":"T23","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A24","pred":"fma_id","subj":"T24","obj":"http://purl.org/sig/ont/fma/fma67095"},{"subj":"T16","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T17","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T18","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T19","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T20","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T21","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T22","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T23","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T24","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T26","span":{"begin":74,"end":82},"obj":"Disease"},{"id":"T27","span":{"begin":247,"end":249},"obj":"Disease"},{"id":"T28","span":{"begin":666,"end":674},"obj":"Disease"},{"id":"T29","span":{"begin":920,"end":928},"obj":"Disease"},{"id":"T30","span":{"begin":1120,"end":1128},"obj":"Disease"},{"id":"T31","span":{"begin":1339,"end":1347},"obj":"Disease"}],"attributes":[{"id":"A26","pred":"mondo_id","subj":"T26","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A27","pred":"mondo_id","subj":"T27","obj":"http://purl.obolibrary.org/obo/MONDO_0019903"},{"id":"A28","pred":"mondo_id","subj":"T28","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A29","pred":"mondo_id","subj":"T29","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A30","pred":"mondo_id","subj":"T30","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A31","pred":"mondo_id","subj":"T31","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T26","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T27","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T28","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T29","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T30","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T31","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T46","span":{"begin":119,"end":120},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T47","span":{"begin":132,"end":136},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T48","span":{"begin":233,"end":234},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T49","span":{"begin":301,"end":308},"obj":"http://purl.obolibrary.org/obo/SO_0000418"},{"id":"T50","span":{"begin":320,"end":324},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T51","span":{"begin":353,"end":360},"obj":"http://purl.obolibrary.org/obo/SO_0000418"},{"id":"T52","span":{"begin":366,"end":370},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T53","span":{"begin":380,"end":381},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"},{"id":"T54","span":{"begin":411,"end":416},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T55","span":{"begin":472,"end":475},"obj":"http://purl.obolibrary.org/obo/CLO_0001445"},{"id":"T56","span":{"begin":622,"end":624},"obj":"http://purl.obolibrary.org/obo/CLO_0053733"},{"id":"T57","span":{"begin":625,"end":628},"obj":"http://purl.obolibrary.org/obo/CLO_0001195"},{"id":"T58","span":{"begin":817,"end":820},"obj":"http://purl.obolibrary.org/obo/CLO_0051456"},{"id":"T59","span":{"begin":839,"end":840},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"},{"id":"T60","span":{"begin":905,"end":912},"obj":"http://purl.obolibrary.org/obo/SO_0000418"},{"id":"T61","span":{"begin":931,"end":935},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T62","span":{"begin":975,"end":981},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T63","span":{"begin":1076,"end":1080},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T64","span":{"begin":1089,"end":1095},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T65","span":{"begin":1202,"end":1206},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T66","span":{"begin":1251,"end":1255},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T67","span":{"begin":1257,"end":1263},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T68","span":{"begin":1322,"end":1326},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"}],"attributes":[{"subj":"T46","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T47","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T48","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T49","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T50","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T51","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T52","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T53","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T54","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T55","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T56","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T57","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T58","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T59","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T60","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T61","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T62","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T63","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T64","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T65","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T66","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T67","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T68","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T11","span":{"begin":441,"end":443},"obj":"Chemical"},{"id":"T12","span":{"begin":445,"end":447},"obj":"Chemical"},{"id":"T13","span":{"begin":797,"end":799},"obj":"Chemical"}],"attributes":[{"id":"A11","pred":"chebi_id","subj":"T11","obj":"http://purl.obolibrary.org/obo/CHEBI_73419"},{"id":"A12","pred":"chebi_id","subj":"T12","obj":"http://purl.obolibrary.org/obo/CHEBI_73419"},{"id":"A13","pred":"chebi_id","subj":"T13","obj":"http://purl.obolibrary.org/obo/CHEBI_73419"},{"subj":"T11","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T12","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T13","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T3","span":{"begin":558,"end":575},"obj":"http://purl.obolibrary.org/obo/GO_0003887"}],"attributes":[{"subj":"T3","pred":"source","obj":"LitCovid-PD-GO-BP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T42","span":{"begin":0,"end":189},"obj":"Sentence"},{"id":"T43","span":{"begin":190,"end":399},"obj":"Sentence"},{"id":"T44","span":{"begin":400,"end":504},"obj":"Sentence"},{"id":"T45","span":{"begin":505,"end":656},"obj":"Sentence"},{"id":"T46","span":{"begin":657,"end":766},"obj":"Sentence"},{"id":"T47","span":{"begin":767,"end":816},"obj":"Sentence"},{"id":"T48","span":{"begin":817,"end":838},"obj":"Sentence"},{"id":"T49","span":{"begin":839,"end":1059},"obj":"Sentence"},{"id":"T50","span":{"begin":1060,"end":1191},"obj":"Sentence"},{"id":"T51","span":{"begin":1192,"end":1233},"obj":"Sentence"},{"id":"T52","span":{"begin":1234,"end":1415},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T42","pred":"source","obj":"LitCovid-sentences"},{"subj":"T43","pred":"source","obj":"LitCovid-sentences"},{"subj":"T44","pred":"source","obj":"LitCovid-sentences"},{"subj":"T45","pred":"source","obj":"LitCovid-sentences"},{"subj":"T46","pred":"source","obj":"LitCovid-sentences"},{"subj":"T47","pred":"source","obj":"LitCovid-sentences"},{"subj":"T48","pred":"source","obj":"LitCovid-sentences"},{"subj":"T49","pred":"source","obj":"LitCovid-sentences"},{"subj":"T50","pred":"source","obj":"LitCovid-sentences"},{"subj":"T51","pred":"source","obj":"LitCovid-sentences"},{"subj":"T52","pred":"source","obj":"LitCovid-sentences"}]},{"project":"2_test","denotations":[{"id":"32156330-31992387-29325818","span":{"begin":112,"end":113},"obj":"31992387"},{"id":"32156330-30059721-29325819","span":{"begin":1146,"end":1147},"obj":"30059721"},{"id":"32156330-30059721-29325820","span":{"begin":1370,"end":1371},"obj":"30059721"}],"attributes":[{"subj":"32156330-31992387-29325818","pred":"source","obj":"2_test"},{"subj":"32156330-30059721-29325819","pred":"source","obj":"2_test"},{"subj":"32156330-30059721-29325820","pred":"source","obj":"2_test"}]},{"project":"MyTest","denotations":[{"id":"32156330-31992387-29325818","span":{"begin":112,"end":113},"obj":"31992387"},{"id":"32156330-30059721-29325819","span":{"begin":1146,"end":1147},"obj":"30059721"},{"id":"32156330-30059721-29325820","span":{"begin":1370,"end":1371},"obj":"30059721"}],"namespaces":[{"prefix":"_base","uri":"https://www.uniprot.org/uniprot/testbase"},{"prefix":"UniProtKB","uri":"https://www.uniprot.org/uniprot/"},{"prefix":"uniprot","uri":"https://www.uniprot.org/uniprotkb/"}],"attributes":[{"subj":"32156330-31992387-29325818","pred":"source","obj":"MyTest"},{"subj":"32156330-30059721-29325819","pred":"source","obj":"MyTest"},{"subj":"32156330-30059721-29325820","pred":"source","obj":"MyTest"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PubTator","color":"#eceb93","default":true},{"id":"LitCovid-PD-FMA-UBERON","color":"#d193ec"},{"id":"LitCovid-PD-MONDO","color":"#93ecb7"},{"id":"LitCovid-PD-CLO","color":"#ec9d93"},{"id":"LitCovid-PD-CHEBI","color":"#93a2ec"},{"id":"LitCovid-PD-GO-BP","color":"#bcec93"},{"id":"LitCovid-sentences","color":"#ec93d6"},{"id":"2_test","color":"#93ece8"},{"id":"MyTest","color":"#ecce93"}]}]}}