PMC:7402624 / 34777-35590 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T314","span":{"begin":151,"end":155},"obj":"Body_part"},{"id":"T315","span":{"begin":163,"end":167},"obj":"Body_part"},{"id":"T316","span":{"begin":175,"end":179},"obj":"Body_part"},{"id":"T317","span":{"begin":421,"end":425},"obj":"Body_part"},{"id":"T318","span":{"begin":433,"end":437},"obj":"Body_part"},{"id":"T319","span":{"begin":445,"end":449},"obj":"Body_part"},{"id":"T320","span":{"begin":544,"end":561},"obj":"Body_part"},{"id":"T321","span":{"begin":544,"end":549},"obj":"Body_part"},{"id":"T322","span":{"begin":574,"end":577},"obj":"Body_part"},{"id":"T323","span":{"begin":604,"end":607},"obj":"Body_part"},{"id":"T324","span":{"begin":618,"end":622},"obj":"Body_part"},{"id":"T325","span":{"begin":758,"end":762},"obj":"Body_part"},{"id":"T326","span":{"begin":769,"end":773},"obj":"Body_part"}],"attributes":[{"id":"A314","pred":"fma_id","subj":"T314","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A315","pred":"fma_id","subj":"T315","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A316","pred":"fma_id","subj":"T316","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A317","pred":"fma_id","subj":"T317","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A318","pred":"fma_id","subj":"T318","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A319","pred":"fma_id","subj":"T319","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A320","pred":"fma_id","subj":"T320","obj":"http://purl.org/sig/ont/fma/fma85545"},{"id":"A321","pred":"fma_id","subj":"T321","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A322","pred":"fma_id","subj":"T322","obj":"http://purl.org/sig/ont/fma/fma67847"},{"id":"A323","pred":"fma_id","subj":"T323","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A324","pred":"fma_id","subj":"T324","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A325","pred":"fma_id","subj":"T325","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A326","pred":"fma_id","subj":"T326","obj":"http://purl.org/sig/ont/fma/fma68646"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-PubTator","denotations":[{"id":"1261","span":{"begin":145,"end":148},"obj":"Gene"},{"id":"1262","span":{"begin":157,"end":160},"obj":"Gene"},{"id":"1263","span":{"begin":427,"end":430},"obj":"Gene"},{"id":"1264","span":{"begin":538,"end":541},"obj":"Gene"},{"id":"1265","span":{"begin":599,"end":603},"obj":"Gene"},{"id":"1266","span":{"begin":612,"end":615},"obj":"Gene"},{"id":"1267","span":{"begin":752,"end":755},"obj":"Gene"},{"id":"1268","span":{"begin":415,"end":418},"obj":"Gene"},{"id":"1269","span":{"begin":41,"end":49},"obj":"Species"},{"id":"1270","span":{"begin":327,"end":335},"obj":"Species"},{"id":"1271","span":{"begin":665,"end":673},"obj":"Species"},{"id":"1272","span":{"begin":32,"end":40},"obj":"Disease"},{"id":"1273","span":{"begin":656,"end":664},"obj":"Disease"}],"attributes":[{"id":"A1261","pred":"tao:has_database_id","subj":"1261","obj":"Gene:925"},{"id":"A1262","pred":"tao:has_database_id","subj":"1262","obj":"Gene:920"},{"id":"A1263","pred":"tao:has_database_id","subj":"1263","obj":"Gene:920"},{"id":"A1264","pred":"tao:has_database_id","subj":"1264","obj":"Gene:925"},{"id":"A1265","pred":"tao:has_database_id","subj":"1265","obj":"Gene:952"},{"id":"A1266","pred":"tao:has_database_id","subj":"1266","obj":"Gene:925"},{"id":"A1267","pred":"tao:has_database_id","subj":"1267","obj":"Gene:920"},{"id":"A1268","pred":"tao:has_database_id","subj":"1268","obj":"Gene:925"},{"id":"A1269","pred":"tao:has_database_id","subj":"1269","obj":"Tax:9606"},{"id":"A1270","pred":"tao:has_database_id","subj":"1270","obj":"Tax:9606"},{"id":"A1271","pred":"tao:has_database_id","subj":"1271","obj":"Tax:9606"},{"id":"A1272","pred":"tao:has_database_id","subj":"1272","obj":"MESH:C000657245"},{"id":"A1273","pred":"tao:has_database_id","subj":"1273","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":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T283","span":{"begin":32,"end":40},"obj":"Disease"},{"id":"T284","span":{"begin":656,"end":664},"obj":"Disease"}],"attributes":[{"id":"A283","pred":"mondo_id","subj":"T283","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A284","pred":"mondo_id","subj":"T284","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T575","span":{"begin":0,"end":1},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T576","span":{"begin":145,"end":148},"obj":"http://purl.obolibrary.org/obo/CLO_0053438"},{"id":"T577","span":{"begin":149,"end":155},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T578","span":{"begin":157,"end":160},"obj":"http://purl.obolibrary.org/obo/PR_000001004"},{"id":"T579","span":{"begin":161,"end":167},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T580","span":{"begin":173,"end":179},"obj":"http://purl.obolibrary.org/obo/CL_0000236"},{"id":"T581","span":{"begin":415,"end":418},"obj":"http://purl.obolibrary.org/obo/CLO_0053438"},{"id":"T582","span":{"begin":419,"end":425},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T583","span":{"begin":427,"end":430},"obj":"http://purl.obolibrary.org/obo/PR_000001004"},{"id":"T584","span":{"begin":431,"end":437},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T585","span":{"begin":443,"end":449},"obj":"http://purl.obolibrary.org/obo/CL_0000236"},{"id":"T586","span":{"begin":538,"end":541},"obj":"http://purl.obolibrary.org/obo/CLO_0053438"},{"id":"T587","span":{"begin":542,"end":549},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T588","span":{"begin":599,"end":603},"obj":"http://purl.obolibrary.org/obo/PR_000001408"},{"id":"T589","span":{"begin":612,"end":615},"obj":"http://purl.obolibrary.org/obo/CLO_0053438"},{"id":"T590","span":{"begin":616,"end":622},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T591","span":{"begin":720,"end":721},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T592","span":{"begin":752,"end":755},"obj":"http://purl.obolibrary.org/obo/PR_000001004"},{"id":"T593","span":{"begin":756,"end":762},"obj":"http://purl.obolibrary.org/obo/CL_0000084"},{"id":"T594","span":{"begin":767,"end":773},"obj":"http://purl.obolibrary.org/obo/CL_0000236"},{"id":"T595","span":{"begin":774,"end":784},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T256","span":{"begin":608,"end":610},"obj":"Chemical"}],"attributes":[{"id":"A256","pred":"chebi_id","subj":"T256","obj":"http://purl.obolibrary.org/obo/CHEBI_73445"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T73","span":{"begin":57,"end":73},"obj":"http://purl.obolibrary.org/obo/GO_0006955"},{"id":"T74","span":{"begin":173,"end":195},"obj":"http://purl.obolibrary.org/obo/GO_0030183"},{"id":"T75","span":{"begin":175,"end":195},"obj":"http://purl.obolibrary.org/obo/GO_0030154"},{"id":"T76","span":{"begin":767,"end":784},"obj":"http://purl.obolibrary.org/obo/GO_0042113"},{"id":"T77","span":{"begin":769,"end":784},"obj":"http://purl.obolibrary.org/obo/GO_0001775"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}

{"project":"LitCovid-sentences","denotations":[{"id":"T201","span":{"begin":0,"end":91},"obj":"Sentence"},{"id":"T202","span":{"begin":92,"end":303},"obj":"Sentence"},{"id":"T203","span":{"begin":304,"end":520},"obj":"Sentence"},{"id":"T204","span":{"begin":521,"end":719},"obj":"Sentence"},{"id":"T205","span":{"begin":720,"end":813},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"A key question for hospitalized COVID-19 patients is how immune responses change over time. Thus, we used the global tSNE projections of overall CD8 T cell, CD4 T cell, and B cell differentiation states to interrogate temporal changes in these populations between D0 and D7 of hospitalization (Fig. 5A). Combining data for all patients revealed considerable stability of the tSNE distributions between D0 and D7 in CD8 T cell, CD4 T cell, and B cell populations, particularly for key regions of interest discussed above. For example, for CD8 T cells, the region of the tSNE map containing KI67+ and CD38+HLA-DR+ CD8 T cell populations that was enriched in COVID-19 patients at D0 (Fig. 2) was preserved at D7 (Fig. 5A). A similar temporal stability of CD4 T cell and B cell activation was also observed (Fig. 5A)."}