PMC:7033720 / 9689-10863 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"158","span":{"begin":911,"end":915},"obj":"Gene"},{"id":"159","span":{"begin":851,"end":859},"obj":"Species"},{"id":"160","span":{"begin":983,"end":990},"obj":"Species"},{"id":"161","span":{"begin":1031,"end":1038},"obj":"Species"},{"id":"162","span":{"begin":1075,"end":1083},"obj":"Species"},{"id":"163","span":{"begin":788,"end":797},"obj":"Disease"},{"id":"174","span":{"begin":69,"end":77},"obj":"Species"},{"id":"175","span":{"begin":167,"end":182},"obj":"Species"},{"id":"176","span":{"begin":184,"end":211},"obj":"Species"},{"id":"177","span":{"begin":213,"end":223},"obj":"Species"},{"id":"178","span":{"begin":386,"end":394},"obj":"Species"},{"id":"179","span":{"begin":682,"end":690},"obj":"Species"},{"id":"180","span":{"begin":21,"end":32},"obj":"Species"},{"id":"181","span":{"begin":134,"end":145},"obj":"Species"},{"id":"182","span":{"begin":253,"end":262},"obj":"Disease"},{"id":"183","span":{"begin":264,"end":287},"obj":"Disease"}],"attributes":[{"id":"A158","pred":"tao:has_database_id","subj":"158","obj":"Gene:56681"},{"id":"A159","pred":"tao:has_database_id","subj":"159","obj":"Tax:694009"},{"id":"A160","pred":"tao:has_database_id","subj":"160","obj":"Tax:9606"},{"id":"A161","pred":"tao:has_database_id","subj":"161","obj":"Tax:9606"},{"id":"A162","pred":"tao:has_database_id","subj":"162","obj":"Tax:9606"},{"id":"A163","pred":"tao:has_database_id","subj":"163","obj":"MESH:D011014"},{"id":"A174","pred":"tao:has_database_id","subj":"174","obj":"Tax:9606"},{"id":"A175","pred":"tao:has_database_id","subj":"175","obj":"Tax:11308"},{"id":"A176","pred":"tao:has_database_id","subj":"176","obj":"Tax:12814"},{"id":"A177","pred":"tao:has_database_id","subj":"177","obj":"Tax:10508"},{"id":"A178","pred":"tao:has_database_id","subj":"178","obj":"Tax:694009"},{"id":"A179","pred":"tao:has_database_id","subj":"179","obj":"Tax:694009"},{"id":"A180","pred":"tao:has_database_id","subj":"180","obj":"Tax:12814"},{"id":"A181","pred":"tao:has_database_id","subj":"181","obj":"Tax:12814"},{"id":"A182","pred":"tao:has_database_id","subj":"182","obj":"MESH:D011014"},{"id":"A183","pred":"tao:has_database_id","subj":"183","obj":"MESH:D023521"}],"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":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T56","span":{"begin":37,"end":42},"obj":"Body_part"},{"id":"T57","span":{"begin":350,"end":353},"obj":"Body_part"},{"id":"T58","span":{"begin":821,"end":824},"obj":"Body_part"}],"attributes":[{"id":"A56","pred":"fma_id","subj":"T56","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A57","pred":"fma_id","subj":"T57","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A58","pred":"fma_id","subj":"T58","obj":"http://purl.org/sig/ont/fma/fma67095"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T14","span":{"begin":37,"end":42},"obj":"Body_part"}],"attributes":[{"id":"A14","pred":"uberon_id","subj":"T14","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T18","span":{"begin":167,"end":176},"obj":"Disease"},{"id":"T19","span":{"begin":242,"end":262},"obj":"Disease"},{"id":"T20","span":{"begin":253,"end":262},"obj":"Disease"},{"id":"T21","span":{"begin":278,"end":287},"obj":"Disease"},{"id":"T22","span":{"begin":293,"end":303},"obj":"Disease"},{"id":"T23","span":{"begin":386,"end":394},"obj":"Disease"},{"id":"T24","span":{"begin":682,"end":690},"obj":"Disease"},{"id":"T25","span":{"begin":788,"end":797},"obj":"Disease"},{"id":"T26","span":{"begin":851,"end":859},"obj":"Disease"}],"attributes":[{"id":"A18","pred":"mondo_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/MONDO_0005812"},{"id":"A19","pred":"mondo_id","subj":"T19","obj":"http://purl.obolibrary.org/obo/MONDO_0005867"},{"id":"A20","pred":"mondo_id","subj":"T20","obj":"http://purl.obolibrary.org/obo/MONDO_0005249"},{"id":"A21","pred":"mondo_id","subj":"T21","obj":"http://purl.obolibrary.org/obo/MONDO_0005249"},{"id":"A22","pred":"mondo_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/MONDO_0005824"},{"id":"A23","pred":"mondo_id","subj":"T23","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A24","pred":"mondo_id","subj":"T24","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A25","pred":"mondo_id","subj":"T25","obj":"http://purl.obolibrary.org/obo/MONDO_0005249"},{"id":"A26","pred":"mondo_id","subj":"T26","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T83","span":{"begin":37,"end":42},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T84","span":{"begin":37,"end":42},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T85","span":{"begin":124,"end":129},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T86","span":{"begin":177,"end":182},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T87","span":{"begin":206,"end":211},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T88","span":{"begin":446,"end":458},"obj":"http://purl.obolibrary.org/obo/OBI_0000245"},{"id":"T89","span":{"begin":610,"end":615},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T90","span":{"begin":818,"end":819},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T91","span":{"begin":957,"end":959},"obj":"http://purl.obolibrary.org/obo/CLO_0053733"},{"id":"T92","span":{"begin":999,"end":1003},"obj":"http://purl.obolibrary.org/obo/CLO_0050509"},{"id":"T93","span":{"begin":1013,"end":1015},"obj":"http://purl.obolibrary.org/obo/CLO_0050507"},{"id":"T94","span":{"begin":1119,"end":1120},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-PD-HP","denotations":[{"id":"T17","span":{"begin":253,"end":262},"obj":"Phenotype"},{"id":"T18","span":{"begin":278,"end":287},"obj":"Phenotype"},{"id":"T19","span":{"begin":788,"end":797},"obj":"Phenotype"}],"attributes":[{"id":"A17","pred":"hp_id","subj":"T17","obj":"http://purl.obolibrary.org/obo/HP_0002090"},{"id":"A18","pred":"hp_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/HP_0002090"},{"id":"A19","pred":"hp_id","subj":"T19","obj":"http://purl.obolibrary.org/obo/HP_0002090"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}

{"project":"LitCovid-sentences","denotations":[{"id":"T95","span":{"begin":0,"end":335},"obj":"Sentence"},{"id":"T96","span":{"begin":336,"end":465},"obj":"Sentence"},{"id":"T97","span":{"begin":466,"end":525},"obj":"Sentence"},{"id":"T98","span":{"begin":526,"end":703},"obj":"Sentence"},{"id":"T99","span":{"begin":704,"end":713},"obj":"Sentence"},{"id":"T100","span":{"begin":714,"end":945},"obj":"Sentence"},{"id":"T101","span":{"begin":946,"end":993},"obj":"Sentence"},{"id":"T102","span":{"begin":994,"end":1041},"obj":"Sentence"},{"id":"T103","span":{"begin":1042,"end":1174},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"On 3rd January 2020, respiratory and blood samples obtained from the patients were subjected to routine clinical laboratory tests for respiratory pathogens, including Influenza virus, Respiratory syncytial virus, Adenovirus, Metapneumovirus, Mycoplasma pneumonia, Chlamydophila pneumonia, and Legionella, all yielding negative results. The remaining RNA samples were first subjected to SARS-CoV specific RT-PCR assays recommended by World Health Organization (WHO). However, only one set yielded positive results (Figure 1A). Further sequencing of the corresponding PCR product surprisingly suggested that the virus discovered is more closely related to BtCoV/4991 (97.35%) but not SARS-CoV (Figure 1B).\nFigure 1. 1st-round of RT-PCR assay, amplification and sequence analysis of unusual pneumonia outbreak in Wuhan. (A) RNA samples were subjected to SARS-CoV specific RT-PCR primer sets as indicated, only the SAR1-s/as set showed obvious band. Lane 1, 6, 11, 16, 21 are samples of patient 1. Lane 2, 7, 12, 17, 22 are samples of patient 2. Other lanes are samples of other patients who are irrelevant to this study. (B) The Blast result of PCR products of patient 1 and 2."}