PMC:7252096 / 8314-9086 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T53833","span":{"begin":124,"end":131},"obj":"Body_part"},{"id":"T78174","span":{"begin":665,"end":670},"obj":"Body_part"},{"id":"T75","span":{"begin":712,"end":719},"obj":"Body_part"},{"id":"T7709","span":{"begin":766,"end":771},"obj":"Body_part"}],"attributes":[{"id":"A53048","pred":"fma_id","subj":"T53833","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A37895","pred":"fma_id","subj":"T78174","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A85773","pred":"fma_id","subj":"T75","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A27170","pred":"fma_id","subj":"T7709","obj":"http://purl.org/sig/ont/fma/fma68646"}],"text":"Here, using published and unpublished datasets (all from non-SARS-CoV-2-infected samples), we analyze human, NHP, and mouse tissues that have been clinically identified to harbor virus in patients exhibiting COVID-19 symptoms. We provide a cautionary note on the interpretation of the scRNA-seq data presented below, given that many factors such as dissociation, profiling method, and sequencing depth can influence results (STAR Methods). Here, we focus our analysis and discussion on the specific subsets where ACE2 and TMPRSS2 are enriched and on relative comparisons within each dataset, rather than between datasets or equivalence to absolute numbers of total cells. Across several studies of human and NHP tissues, we found ISGs upregulated in ACE2-expressing cells."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T72","span":{"begin":61,"end":69},"obj":"Disease"},{"id":"T73","span":{"begin":61,"end":65},"obj":"Disease"},{"id":"T74","span":{"begin":208,"end":216},"obj":"Disease"},{"id":"T75","span":{"begin":425,"end":429},"obj":"Disease"}],"attributes":[{"id":"A72","pred":"mondo_id","subj":"T72","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A73","pred":"mondo_id","subj":"T73","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A74","pred":"mondo_id","subj":"T74","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A75","pred":"mondo_id","subj":"T75","obj":"http://purl.obolibrary.org/obo/MONDO_0010408"}],"text":"Here, using published and unpublished datasets (all from non-SARS-CoV-2-infected samples), we analyze human, NHP, and mouse tissues that have been clinically identified to harbor virus in patients exhibiting COVID-19 symptoms. We provide a cautionary note on the interpretation of the scRNA-seq data presented below, given that many factors such as dissociation, profiling method, and sequencing depth can influence results (STAR Methods). Here, we focus our analysis and discussion on the specific subsets where ACE2 and TMPRSS2 are enriched and on relative comparisons within each dataset, rather than between datasets or equivalence to absolute numbers of total cells. Across several studies of human and NHP tissues, we found ISGs upregulated in ACE2-expressing cells."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T76977","span":{"begin":102,"end":107},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T67329","span":{"begin":118,"end":123},"obj":"http://purl.obolibrary.org/obo/CLO_0007836"},{"id":"T76049","span":{"begin":179,"end":184},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T43005","span":{"begin":238,"end":239},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T35824","span":{"begin":449,"end":454},"obj":"http://purl.obolibrary.org/obo/CLO_0009985"},{"id":"T87459","span":{"begin":665,"end":670},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T40104","span":{"begin":698,"end":703},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T18042","span":{"begin":766,"end":771},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"text":"Here, using published and unpublished datasets (all from non-SARS-CoV-2-infected samples), we analyze human, NHP, and mouse tissues that have been clinically identified to harbor virus in patients exhibiting COVID-19 symptoms. We provide a cautionary note on the interpretation of the scRNA-seq data presented below, given that many factors such as dissociation, profiling method, and sequencing depth can influence results (STAR Methods). Here, we focus our analysis and discussion on the specific subsets where ACE2 and TMPRSS2 are enriched and on relative comparisons within each dataset, rather than between datasets or equivalence to absolute numbers of total cells. Across several studies of human and NHP tissues, we found ISGs upregulated in ACE2-expressing cells."}

{"project":"LitCovid-sentences","denotations":[{"id":"T47","span":{"begin":0,"end":226},"obj":"Sentence"},{"id":"T48","span":{"begin":227,"end":439},"obj":"Sentence"},{"id":"T49","span":{"begin":440,"end":671},"obj":"Sentence"},{"id":"T50","span":{"begin":672,"end":772},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Here, using published and unpublished datasets (all from non-SARS-CoV-2-infected samples), we analyze human, NHP, and mouse tissues that have been clinically identified to harbor virus in patients exhibiting COVID-19 symptoms. We provide a cautionary note on the interpretation of the scRNA-seq data presented below, given that many factors such as dissociation, profiling method, and sequencing depth can influence results (STAR Methods). Here, we focus our analysis and discussion on the specific subsets where ACE2 and TMPRSS2 are enriched and on relative comparisons within each dataset, rather than between datasets or equivalence to absolute numbers of total cells. Across several studies of human and NHP tissues, we found ISGs upregulated in ACE2-expressing cells."}

{"project":"LitCovid-PubTator","denotations":[{"id":"268","span":{"begin":513,"end":517},"obj":"Gene"},{"id":"269","span":{"begin":522,"end":529},"obj":"Gene"},{"id":"270","span":{"begin":750,"end":754},"obj":"Gene"},{"id":"271","span":{"begin":425,"end":429},"obj":"Gene"},{"id":"272","span":{"begin":102,"end":107},"obj":"Species"},{"id":"273","span":{"begin":118,"end":123},"obj":"Species"},{"id":"274","span":{"begin":188,"end":196},"obj":"Species"},{"id":"275","span":{"begin":698,"end":703},"obj":"Species"},{"id":"276","span":{"begin":66,"end":80},"obj":"Disease"},{"id":"277","span":{"begin":208,"end":216},"obj":"Disease"}],"attributes":[{"id":"A268","pred":"tao:has_database_id","subj":"268","obj":"Gene:59272"},{"id":"A269","pred":"tao:has_database_id","subj":"269","obj":"Gene:7113"},{"id":"A270","pred":"tao:has_database_id","subj":"270","obj":"Gene:59272"},{"id":"A271","pred":"tao:has_database_id","subj":"271","obj":"Gene:6770"},{"id":"A272","pred":"tao:has_database_id","subj":"272","obj":"Tax:9606"},{"id":"A273","pred":"tao:has_database_id","subj":"273","obj":"Tax:10090"},{"id":"A274","pred":"tao:has_database_id","subj":"274","obj":"Tax:9606"},{"id":"A275","pred":"tao:has_database_id","subj":"275","obj":"Tax:9606"},{"id":"A276","pred":"tao:has_database_id","subj":"276","obj":"MESH:C000657245"},{"id":"A277","pred":"tao:has_database_id","subj":"277","obj":"MESH:C000657245"}],"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":"Here, using published and unpublished datasets (all from non-SARS-CoV-2-infected samples), we analyze human, NHP, and mouse tissues that have been clinically identified to harbor virus in patients exhibiting COVID-19 symptoms. We provide a cautionary note on the interpretation of the scRNA-seq data presented below, given that many factors such as dissociation, profiling method, and sequencing depth can influence results (STAR Methods). Here, we focus our analysis and discussion on the specific subsets where ACE2 and TMPRSS2 are enriched and on relative comparisons within each dataset, rather than between datasets or equivalence to absolute numbers of total cells. Across several studies of human and NHP tissues, we found ISGs upregulated in ACE2-expressing cells."}