PMC:7067204 / 20675-21603 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"1043","span":{"begin":223,"end":226},"obj":"Gene"},{"id":"1044","span":{"begin":703,"end":706},"obj":"Gene"},{"id":"1045","span":{"begin":685,"end":688},"obj":"Gene"},{"id":"1046","span":{"begin":654,"end":657},"obj":"Gene"},{"id":"1047","span":{"begin":635,"end":638},"obj":"Gene"},{"id":"1048","span":{"begin":603,"end":606},"obj":"Gene"},{"id":"1049","span":{"begin":472,"end":475},"obj":"Gene"},{"id":"1050","span":{"begin":423,"end":426},"obj":"Gene"},{"id":"1051","span":{"begin":373,"end":376},"obj":"Gene"},{"id":"1052","span":{"begin":27,"end":29},"obj":"Gene"},{"id":"1053","span":{"begin":756,"end":760},"obj":"Gene"},{"id":"1054","span":{"begin":88,"end":92},"obj":"Gene"},{"id":"1055","span":{"begin":22,"end":26},"obj":"Gene"},{"id":"1056","span":{"begin":753,"end":755},"obj":"Gene"},{"id":"1057","span":{"begin":700,"end":702},"obj":"Gene"},{"id":"1058","span":{"begin":114,"end":116},"obj":"Gene"},{"id":"1059","span":{"begin":85,"end":87},"obj":"Gene"},{"id":"1060","span":{"begin":19,"end":21},"obj":"Gene"},{"id":"1061","span":{"begin":117,"end":126},"obj":"Species"},{"id":"1062","span":{"begin":168,"end":193},"obj":"Species"},{"id":"1063","span":{"begin":308,"end":324},"obj":"Species"},{"id":"1064","span":{"begin":203,"end":206},"obj":"Gene"},{"id":"1065","span":{"begin":157,"end":165},"obj":"CellLine"}],"attributes":[{"id":"A1043","pred":"tao:has_database_id","subj":"1043","obj":"Gene:570"},{"id":"A1044","pred":"tao:has_database_id","subj":"1044","obj":"Gene:25085"},{"id":"A1045","pred":"tao:has_database_id","subj":"1045","obj":"Gene:25085"},{"id":"A1046","pred":"tao:has_database_id","subj":"1046","obj":"Gene:25085"},{"id":"A1047","pred":"tao:has_database_id","subj":"1047","obj":"Gene:25085"},{"id":"A1048","pred":"tao:has_database_id","subj":"1048","obj":"Gene:25085"},{"id":"A1049","pred":"tao:has_database_id","subj":"1049","obj":"Gene:25085"},{"id":"A1050","pred":"tao:has_database_id","subj":"1050","obj":"Gene:25085"},{"id":"A1051","pred":"tao:has_database_id","subj":"1051","obj":"Gene:25085"},{"id":"A1052","pred":"tao:has_database_id","subj":"1052","obj":"Gene:6999"},{"id":"A1053","pred":"tao:has_database_id","subj":"1053","obj":"Gene:43740577"},{"id":"A1054","pred":"tao:has_database_id","subj":"1054","obj":"Gene:43740577"},{"id":"A1055","pred":"tao:has_database_id","subj":"1055","obj":"Gene:43740577"},{"id":"A1056","pred":"tao:has_database_id","subj":"1056","obj":"Gene:6688"},{"id":"A1057","pred":"tao:has_database_id","subj":"1057","obj":"Gene:6688"},{"id":"A1058","pred":"tao:has_database_id","subj":"1058","obj":"Gene:6688"},{"id":"A1059","pred":"tao:has_database_id","subj":"1059","obj":"Gene:6688"},{"id":"A1060","pred":"tao:has_database_id","subj":"1060","obj":"Gene:6688"},{"id":"A1061","pred":"tao:has_database_id","subj":"1061","obj":"Tax:2697049"},{"id":"A1062","pred":"tao:has_database_id","subj":"1062","obj":"Tax:1508227"},{"id":"A1063","pred":"tao:has_database_id","subj":"1063","obj":"Tax:694009"},{"id":"A1064","pred":"tao:has_database_id","subj":"1064","obj":"Gene:570"},{"id":"A1065","pred":"tao:has_database_id","subj":"1065","obj":"CVCL:U508"}],"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":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T99","span":{"begin":50,"end":57},"obj":"Body_part"},{"id":"T100","span":{"begin":93,"end":103},"obj":"Body_part"},{"id":"T101","span":{"begin":707,"end":717},"obj":"Body_part"},{"id":"T102","span":{"begin":849,"end":854},"obj":"Body_part"}],"attributes":[{"id":"A99","pred":"fma_id","subj":"T99","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A100","pred":"fma_id","subj":"T100","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A101","pred":"fma_id","subj":"T101","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A102","pred":"fma_id","subj":"T102","obj":"http://purl.org/sig/ont/fma/fma60992"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T18","span":{"begin":849,"end":854},"obj":"Body_part"}],"attributes":[{"id":"A18","pred":"uberon_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/UBERON_0002488"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T105","span":{"begin":172,"end":176},"obj":"Disease"},{"id":"T106","span":{"begin":308,"end":312},"obj":"Disease"}],"attributes":[{"id":"A105","pred":"mondo_id","subj":"T105","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A106","pred":"mondo_id","subj":"T106","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T247","span":{"begin":60,"end":61},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T248","span":{"begin":168,"end":171},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T249","span":{"begin":203,"end":206},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T250","span":{"begin":223,"end":226},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T251","span":{"begin":302,"end":307},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T252","span":{"begin":502,"end":503},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T136","span":{"begin":50,"end":57},"obj":"Chemical"},{"id":"T137","span":{"begin":93,"end":103},"obj":"Chemical"},{"id":"T138","span":{"begin":93,"end":98},"obj":"Chemical"},{"id":"T139","span":{"begin":99,"end":103},"obj":"Chemical"},{"id":"T140","span":{"begin":207,"end":209},"obj":"Chemical"},{"id":"T141","span":{"begin":227,"end":229},"obj":"Chemical"},{"id":"T142","span":{"begin":707,"end":717},"obj":"Chemical"},{"id":"T143","span":{"begin":707,"end":712},"obj":"Chemical"},{"id":"T144","span":{"begin":713,"end":717},"obj":"Chemical"}],"attributes":[{"id":"A136","pred":"chebi_id","subj":"T136","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A137","pred":"chebi_id","subj":"T137","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A138","pred":"chebi_id","subj":"T138","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A139","pred":"chebi_id","subj":"T139","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"id":"A140","pred":"chebi_id","subj":"T140","obj":"http://purl.obolibrary.org/obo/CHEBI_74815"},{"id":"A141","pred":"chebi_id","subj":"T141","obj":"http://purl.obolibrary.org/obo/CHEBI_74815"},{"id":"A142","pred":"chebi_id","subj":"T142","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A143","pred":"chebi_id","subj":"T143","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A144","pred":"chebi_id","subj":"T144","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}

{"project":"LitCovid-sentences","denotations":[{"id":"T208","span":{"begin":0,"end":9},"obj":"Sentence"},{"id":"T209","span":{"begin":10,"end":422},"obj":"Sentence"},{"id":"T210","span":{"begin":423,"end":602},"obj":"Sentence"},{"id":"T211","span":{"begin":603,"end":838},"obj":"Sentence"},{"id":"T212","span":{"begin":839,"end":928},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively."}