PMC:7073332 / 38269-38876 JSONTXT

Annnotations TAB JSON ListView MergeView

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7073332","sourcedb":"PMC","sourceid":"7073332","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7073332","text":"In total, we collected DNA sequences and protein sequences for 15 HCoVs, including three most recent 2019-nCoV/SARS-CoV-2 genomes, from the NCBI GenBank database (28 January 2020, Supplementary Table S1). Whole-genome alignment and protein sequence identity calculation were performed by Multiple Sequence Alignment in EMBL-EBI database (https://www.ebi.ac.uk/) with default parameters. The neighbor joining (NJ) tree was computed from the pairwise phylogenetic distance matrix using MEGA X84 with 1000 bootstrap replicates. The protein alignment and phylogenetic tree of HCoVs were constructed by MEGA X84.","tracks":[{"project":"LitCovid-PubTator","denotations":[{"id":"1087","span":{"begin":350,"end":353},"obj":"Gene"},{"id":"1088","span":{"begin":101,"end":110},"obj":"Species"},{"id":"1089","span":{"begin":111,"end":121},"obj":"Species"}],"attributes":[{"id":"A1087","pred":"tao:has_database_id","subj":"1087","obj":"Gene:6907"},{"id":"A1088","pred":"tao:has_database_id","subj":"1088","obj":"Tax:2697049"},{"id":"A1089","pred":"tao:has_database_id","subj":"1089","obj":"Tax:2697049"},{"subj":"1087","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1088","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1089","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":"T181","span":{"begin":23,"end":26},"obj":"Body_part"},{"id":"T182","span":{"begin":41,"end":48},"obj":"Body_part"},{"id":"T183","span":{"begin":122,"end":129},"obj":"Body_part"},{"id":"T184","span":{"begin":211,"end":217},"obj":"Body_part"},{"id":"T185","span":{"begin":232,"end":239},"obj":"Body_part"},{"id":"T186","span":{"begin":529,"end":536},"obj":"Body_part"}],"attributes":[{"id":"A181","pred":"fma_id","subj":"T181","obj":"http://purl.org/sig/ont/fma/fma74412"},{"id":"A182","pred":"fma_id","subj":"T182","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A183","pred":"fma_id","subj":"T183","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A184","pred":"fma_id","subj":"T184","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A185","pred":"fma_id","subj":"T185","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A186","pred":"fma_id","subj":"T186","obj":"http://purl.org/sig/ont/fma/fma67257"},{"subj":"T181","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T182","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T183","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T184","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T185","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T186","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T157","span":{"begin":111,"end":119},"obj":"Disease"}],"attributes":[{"id":"A157","pred":"mondo_id","subj":"T157","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T157","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T271","span":{"begin":200,"end":202},"obj":"http://purl.obolibrary.org/obo/CLO_0050050"}],"attributes":[{"subj":"T271","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T431","span":{"begin":23,"end":26},"obj":"Chemical"},{"id":"T432","span":{"begin":41,"end":48},"obj":"Chemical"},{"id":"T433","span":{"begin":232,"end":239},"obj":"Chemical"},{"id":"T434","span":{"begin":484,"end":488},"obj":"Chemical"},{"id":"T435","span":{"begin":529,"end":536},"obj":"Chemical"},{"id":"T436","span":{"begin":598,"end":602},"obj":"Chemical"}],"attributes":[{"id":"A431","pred":"chebi_id","subj":"T431","obj":"http://purl.obolibrary.org/obo/CHEBI_16991"},{"id":"A432","pred":"chebi_id","subj":"T432","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A433","pred":"chebi_id","subj":"T433","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A434","pred":"chebi_id","subj":"T434","obj":"http://purl.obolibrary.org/obo/CHEBI_6617"},{"id":"A435","pred":"chebi_id","subj":"T435","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A436","pred":"chebi_id","subj":"T436","obj":"http://purl.obolibrary.org/obo/CHEBI_6617"},{"subj":"T431","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T432","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T433","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T434","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T435","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T436","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T236","span":{"begin":0,"end":204},"obj":"Sentence"},{"id":"T237","span":{"begin":205,"end":386},"obj":"Sentence"},{"id":"T238","span":{"begin":387,"end":524},"obj":"Sentence"},{"id":"T239","span":{"begin":525,"end":607},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T236","pred":"source","obj":"LitCovid-sentences"},{"subj":"T237","pred":"source","obj":"LitCovid-sentences"},{"subj":"T238","pred":"source","obj":"LitCovid-sentences"},{"subj":"T239","pred":"source","obj":"LitCovid-sentences"}]},{"project":"2_test","denotations":[{"id":"32194980-29722887-19614248","span":{"begin":490,"end":492},"obj":"29722887"},{"id":"32194980-29722887-19614249","span":{"begin":604,"end":606},"obj":"29722887"}],"attributes":[{"subj":"32194980-29722887-19614248","pred":"source","obj":"2_test"},{"subj":"32194980-29722887-19614249","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PubTator","color":"#ce93ec","default":true},{"id":"LitCovid-PD-FMA-UBERON","color":"#93ecb4"},{"id":"LitCovid-PD-MONDO","color":"#ec9a93"},{"id":"LitCovid-PD-CLO","color":"#93a6ec"},{"id":"LitCovid-PD-CHEBI","color":"#c0ec93"},{"id":"LitCovid-sentences","color":"#ec93da"},{"id":"2_test","color":"#93ece4"}]}]}}