PMC:7253482 / 32952-33391 JSONTXT

Annnotations TAB JSON ListView MergeView

{"target":"http://pubannotation.org/docs/sourcedb/PMC/sourceid/7253482","sourcedb":"PMC","sourceid":"7253482","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7253482","text":"Publicly available sequences encoding full-length GPC spike gene for SARS-CoV (3765 bp) were downloaded from GenBank and manually aligned. For MERS-CoV, we leveraged the whole genome alignment collated by Dudas et al.69. Specifically, the alignment corresponding to the spike gene was extracted (4059 bp), excluding sequences isolated from humans. Final alignments for SARS- and MERS-CoV corresponded to 70 and 100 sequences, respectively.","tracks":[{"project":"LitCovid-PubTator","denotations":[{"id":"998","span":{"begin":50,"end":53},"obj":"Gene"},{"id":"999","span":{"begin":270,"end":275},"obj":"Gene"},{"id":"1000","span":{"begin":54,"end":59},"obj":"Gene"},{"id":"1001","span":{"begin":69,"end":77},"obj":"Species"},{"id":"1002","span":{"begin":143,"end":151},"obj":"Species"},{"id":"1003","span":{"begin":340,"end":346},"obj":"Species"},{"id":"1004","span":{"begin":379,"end":387},"obj":"Species"},{"id":"1005","span":{"begin":369,"end":373},"obj":"Disease"}],"attributes":[{"id":"A998","pred":"tao:has_database_id","subj":"998","obj":"Gene:2995"},{"id":"A999","pred":"tao:has_database_id","subj":"999","obj":"Gene:43740568"},{"id":"A1000","pred":"tao:has_database_id","subj":"1000","obj":"Gene:43740568"},{"id":"A1001","pred":"tao:has_database_id","subj":"1001","obj":"Tax:694009"},{"id":"A1002","pred":"tao:has_database_id","subj":"1002","obj":"Tax:1335626"},{"id":"A1003","pred":"tao:has_database_id","subj":"1003","obj":"Tax:9606"},{"id":"A1004","pred":"tao:has_database_id","subj":"1004","obj":"Tax:1335626"},{"id":"A1005","pred":"tao:has_database_id","subj":"1005","obj":"MESH:D045169"},{"subj":"998","pred":"source","obj":"LitCovid-PubTator"},{"subj":"999","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1000","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1001","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1002","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1003","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1004","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1005","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":"T169","span":{"begin":60,"end":64},"obj":"Body_part"},{"id":"T170","span":{"begin":176,"end":182},"obj":"Body_part"},{"id":"T171","span":{"begin":276,"end":280},"obj":"Body_part"}],"attributes":[{"id":"A169","pred":"fma_id","subj":"T169","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A170","pred":"fma_id","subj":"T170","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A171","pred":"fma_id","subj":"T171","obj":"http://purl.org/sig/ont/fma/fma74402"},{"subj":"T169","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T170","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T171","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T99","span":{"begin":69,"end":77},"obj":"Disease"},{"id":"T100","span":{"begin":69,"end":73},"obj":"Disease"},{"id":"T101","span":{"begin":369,"end":373},"obj":"Disease"}],"attributes":[{"id":"A99","pred":"mondo_id","subj":"T99","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A100","pred":"mondo_id","subj":"T100","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A101","pred":"mondo_id","subj":"T101","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T99","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T100","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T101","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T237","span":{"begin":60,"end":64},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T238","span":{"begin":276,"end":280},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T239","span":{"begin":340,"end":346},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"}],"attributes":[{"subj":"T237","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T238","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T239","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-sample-PD-FMA","denotations":[{"id":"T167","span":{"begin":60,"end":64},"obj":"Body_part"},{"id":"T168","span":{"begin":176,"end":182},"obj":"Body_part"},{"id":"T169","span":{"begin":276,"end":280},"obj":"Body_part"}],"attributes":[{"id":"A167","pred":"fma_id","subj":"T167","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A168","pred":"fma_id","subj":"T168","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A169","pred":"fma_id","subj":"T169","obj":"http://purl.org/sig/ont/fma/fma74402"},{"subj":"T167","pred":"source","obj":"LitCovid-sample-PD-FMA"},{"subj":"T168","pred":"source","obj":"LitCovid-sample-PD-FMA"},{"subj":"T169","pred":"source","obj":"LitCovid-sample-PD-FMA"}]},{"project":"LitCovid-sample-PD-NCBITaxon","denotations":[{"id":"T205","span":{"begin":69,"end":77},"obj":"Species"},{"id":"T206","span":{"begin":69,"end":73},"obj":"Species"},{"id":"T207","span":{"begin":143,"end":151},"obj":"Species"},{"id":"T208","span":{"begin":340,"end":346},"obj":"Species"},{"id":"T209","span":{"begin":369,"end":373},"obj":"Species"},{"id":"T210","span":{"begin":379,"end":387},"obj":"Species"}],"attributes":[{"id":"A205","pred":"ncbi_taxonomy_id","subj":"T205","obj":"NCBItxid:694009"},{"id":"A206","pred":"ncbi_taxonomy_id","subj":"T206","obj":"NCBItxid:694009"},{"id":"A207","pred":"ncbi_taxonomy_id","subj":"T207","obj":"NCBItxid:1335626"},{"id":"A208","pred":"ncbi_taxonomy_id","subj":"T208","obj":"NCBItxid:9605"},{"id":"A209","pred":"ncbi_taxonomy_id","subj":"T209","obj":"NCBItxid:694009"},{"id":"A210","pred":"ncbi_taxonomy_id","subj":"T210","obj":"NCBItxid:1335626"},{"subj":"T205","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T206","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T207","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T208","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T209","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T210","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"}],"namespaces":[{"prefix":"NCBItxid","uri":"http://purl.bioontology.org/ontology/NCBITAXON/"}]},{"project":"LitCovid-sample-sentences","denotations":[{"id":"T197","span":{"begin":0,"end":138},"obj":"Sentence"},{"id":"T198","span":{"begin":139,"end":220},"obj":"Sentence"},{"id":"T199","span":{"begin":221,"end":347},"obj":"Sentence"},{"id":"T200","span":{"begin":348,"end":439},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T197","pred":"source","obj":"LitCovid-sample-sentences"},{"subj":"T198","pred":"source","obj":"LitCovid-sample-sentences"},{"subj":"T199","pred":"source","obj":"LitCovid-sample-sentences"},{"subj":"T200","pred":"source","obj":"LitCovid-sample-sentences"}]},{"project":"LitCovid-sample-PD-MONDO","denotations":[{"id":"T94","span":{"begin":69,"end":77},"obj":"Disease"},{"id":"T95","span":{"begin":69,"end":73},"obj":"Disease"},{"id":"T96","span":{"begin":369,"end":373},"obj":"Disease"}],"attributes":[{"id":"A94","pred":"mondo_id","subj":"T94","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A95","pred":"mondo_id","subj":"T95","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A96","pred":"mondo_id","subj":"T96","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T94","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T95","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T96","pred":"source","obj":"LitCovid-sample-PD-MONDO"}]},{"project":"LitCovid-sample-Pubtator","denotations":[{"id":"998","span":{"begin":50,"end":53},"obj":"Gene"},{"id":"1000","span":{"begin":54,"end":59},"obj":"Gene"},{"id":"1001","span":{"begin":69,"end":77},"obj":"Species"},{"id":"1002","span":{"begin":143,"end":151},"obj":"Species"},{"id":"999","span":{"begin":270,"end":275},"obj":"Gene"},{"id":"1003","span":{"begin":340,"end":346},"obj":"Species"},{"id":"1005","span":{"begin":369,"end":373},"obj":"Disease"},{"id":"1004","span":{"begin":379,"end":387},"obj":"Species"}],"attributes":[{"id":"A1001","pred":"pubann:denotes","subj":"1001","obj":"Tax:694009"},{"id":"A999","pred":"pubann:denotes","subj":"999","obj":"Gene:43740568"},{"id":"A1003","pred":"pubann:denotes","subj":"1003","obj":"Tax:9606"},{"id":"A998","pred":"pubann:denotes","subj":"998","obj":"Gene:2995"},{"id":"A1002","pred":"pubann:denotes","subj":"1002","obj":"Tax:1335626"},{"id":"A1005","pred":"pubann:denotes","subj":"1005","obj":"MESH:D045169"},{"id":"A1000","pred":"pubann:denotes","subj":"1000","obj":"Gene:43740568"},{"id":"A1004","pred":"pubann:denotes","subj":"1004","obj":"Tax:1335626"},{"subj":"998","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1000","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1001","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1002","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"999","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1003","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1005","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1004","pred":"source","obj":"LitCovid-sample-Pubtator"}]},{"project":"LitCovid-sample-UniProt","denotations":[{"id":"T6448","span":{"begin":38,"end":42},"obj":"Protein"},{"id":"T6449","span":{"begin":50,"end":53},"obj":"Protein"}],"attributes":[{"id":"A6448","pred":"uniprot_id","subj":"T6448","obj":"https://www.uniprot.org/uniprot/Q8N1N2"},{"id":"A6449","pred":"uniprot_id","subj":"T6449","obj":"https://www.uniprot.org/uniprot/P03711"},{"subj":"T6448","pred":"source","obj":"LitCovid-sample-UniProt"},{"subj":"T6449","pred":"source","obj":"LitCovid-sample-UniProt"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T197","span":{"begin":0,"end":138},"obj":"Sentence"},{"id":"T198","span":{"begin":139,"end":220},"obj":"Sentence"},{"id":"T199","span":{"begin":221,"end":347},"obj":"Sentence"},{"id":"T200","span":{"begin":348,"end":439},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T197","pred":"source","obj":"LitCovid-sentences"},{"subj":"T198","pred":"source","obj":"LitCovid-sentences"},{"subj":"T199","pred":"source","obj":"LitCovid-sentences"},{"subj":"T200","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PubTator","color":"#ecc193","default":true},{"id":"LitCovid-PD-FMA-UBERON","color":"#a793ec"},{"id":"LitCovid-PD-MONDO","color":"#98ec93"},{"id":"LitCovid-PD-CLO","color":"#ec93b2"},{"id":"LitCovid-sample-PD-FMA","color":"#93ccec"},{"id":"LitCovid-sample-PD-NCBITaxon","color":"#e6ec93"},{"id":"LitCovid-sample-sentences","color":"#d793ec"},{"id":"LitCovid-sample-PD-MONDO","color":"#93ecbd"},{"id":"LitCovid-sample-Pubtator","color":"#eca393"},{"id":"LitCovid-sample-UniProt","color":"#939cec"},{"id":"LitCovid-sentences","color":"#b6ec93"}]}]}}