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LitCovid-PD-FMA-UBERON

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T7","span":{"begin":29,"end":34},"obj":"Body_part"},{"id":"T8","span":{"begin":141,"end":153},"obj":"Body_part"},{"id":"T9","span":{"begin":191,"end":196},"obj":"Body_part"},{"id":"T10","span":{"begin":325,"end":329},"obj":"Body_part"},{"id":"T11","span":{"begin":366,"end":370},"obj":"Body_part"},{"id":"T12","span":{"begin":408,"end":412},"obj":"Body_part"},{"id":"T13","span":{"begin":605,"end":608},"obj":"Body_part"},{"id":"T14","span":{"begin":625,"end":630},"obj":"Body_part"},{"id":"T15","span":{"begin":638,"end":643},"obj":"Body_part"},{"id":"T16","span":{"begin":697,"end":715},"obj":"Body_part"},{"id":"T17","span":{"begin":710,"end":715},"obj":"Body_part"},{"id":"T18","span":{"begin":731,"end":736},"obj":"Body_part"},{"id":"T19","span":{"begin":747,"end":751},"obj":"Body_part"},{"id":"T20","span":{"begin":832,"end":837},"obj":"Body_part"},{"id":"T21","span":{"begin":935,"end":939},"obj":"Body_part"},{"id":"T22","span":{"begin":999,"end":1003},"obj":"Body_part"}],"attributes":[{"id":"A7","pred":"fma_id","subj":"T7","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A8","pred":"fma_id","subj":"T8","obj":"http://purl.org/sig/ont/fma/fma76577"},{"id":"A9","pred":"fma_id","subj":"T9","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A10","pred":"fma_id","subj":"T10","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A11","pred":"fma_id","subj":"T11","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A12","pred":"fma_id","subj":"T12","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A13","pred":"fma_id","subj":"T13","obj":"http://purl.org/sig/ont/fma/fma20935"},{"id":"A14","pred":"fma_id","subj":"T14","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A15","pred":"fma_id","subj":"T15","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A16","pred":"fma_id","subj":"T16","obj":"http://purl.org/sig/ont/fma/fma84070"},{"id":"A17","pred":"fma_id","subj":"T17","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A18","pred":"fma_id","subj":"T18","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A19","pred":"fma_id","subj":"T19","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A20","pred":"fma_id","subj":"T20","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A21","pred":"fma_id","subj":"T21","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A22","pred":"fma_id","subj":"T22","obj":"http://purl.org/sig/ont/fma/fma68646"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PD-UBERON

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T1","span":{"begin":638,"end":643},"obj":"Body_part"}],"attributes":[{"id":"A1","pred":"uberon_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PubTator

{"project":"LitCovid-PubTator","denotations":[{"id":"63","span":{"begin":319,"end":322},"obj":"Gene"},{"id":"64","span":{"begin":402,"end":405},"obj":"Gene"},{"id":"65","span":{"begin":593,"end":597},"obj":"Gene"},{"id":"66","span":{"begin":602,"end":608},"obj":"Gene"},{"id":"67","span":{"begin":619,"end":622},"obj":"Gene"},{"id":"68","span":{"begin":360,"end":363},"obj":"Gene"},{"id":"69","span":{"begin":432,"end":445},"obj":"Species"},{"id":"70","span":{"begin":503,"end":512},"obj":"Species"},{"id":"71","span":{"begin":1027,"end":1035},"obj":"Species"},{"id":"72","span":{"begin":0,"end":9},"obj":"Species"},{"id":"73","span":{"begin":215,"end":224},"obj":"Disease"},{"id":"74","span":{"begin":1018,"end":1026},"obj":"Disease"},{"id":"75","span":{"begin":1109,"end":1121},"obj":"Disease"},{"id":"76","span":{"begin":1265,"end":1273},"obj":"Disease"},{"id":"77","span":{"begin":1274,"end":1285},"obj":"Disease"}],"attributes":[{"id":"A63","pred":"tao:has_database_id","subj":"63","obj":"Gene:920"},{"id":"A64","pred":"tao:has_database_id","subj":"64","obj":"Gene:920"},{"id":"A65","pred":"tao:has_database_id","subj":"65","obj":"Gene:3569"},{"id":"A66","pred":"tao:has_database_id","subj":"66","obj":"Gene:1437"},{"id":"A67","pred":"tao:has_database_id","subj":"67","obj":"Gene:920"},{"id":"A68","pred":"tao:has_database_id","subj":"68","obj":"Gene:925"},{"id":"A69","pred":"tao:has_database_id","subj":"69","obj":"Tax:11118"},{"id":"A70","pred":"tao:has_database_id","subj":"70","obj":"Tax:2697049"},{"id":"A71","pred":"tao:has_database_id","subj":"71","obj":"Tax:9606"},{"id":"A72","pred":"tao:has_database_id","subj":"72","obj":"Tax:2697049"},{"id":"A73","pred":"tao:has_database_id","subj":"73","obj":"MESH:D007239"},{"id":"A74","pred":"tao:has_database_id","subj":"74","obj":"MESH:C000657245"},{"id":"A75","pred":"tao:has_database_id","subj":"75","obj":"MESH:D064420"},{"id":"A76","pred":"tao:has_database_id","subj":"76","obj":"MESH:C000657245"},{"id":"A77","pred":"tao:has_database_id","subj":"77","obj":"MESH:D008231"}],"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":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PD-MONDO

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T18","span":{"begin":0,"end":4},"obj":"Disease"},{"id":"T19","span":{"begin":215,"end":224},"obj":"Disease"},{"id":"T20","span":{"begin":503,"end":507},"obj":"Disease"},{"id":"T21","span":{"begin":1018,"end":1026},"obj":"Disease"},{"id":"T22","span":{"begin":1265,"end":1273},"obj":"Disease"},{"id":"T23","span":{"begin":1274,"end":1285},"obj":"Disease"}],"attributes":[{"id":"A18","pred":"mondo_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A19","pred":"mondo_id","subj":"T19","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"},{"id":"A20","pred":"mondo_id","subj":"T20","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A21","pred":"mondo_id","subj":"T21","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A22","pred":"mondo_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A23","pred":"mondo_id","subj":"T23","obj":"http://purl.obolibrary.org/obo/MONDO_0003783"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PD-CLO

LitCovid-PD-CHEBI

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T1","span":{"begin":10,"end":17},"obj":"Chemical"},{"id":"T2","span":{"begin":84,"end":92},"obj":"Chemical"},{"id":"T3","span":{"begin":101,"end":103},"obj":"Chemical"},{"id":"T4","span":{"begin":118,"end":126},"obj":"Chemical"},{"id":"T5","span":{"begin":593,"end":595},"obj":"Chemical"},{"id":"T7","span":{"begin":602,"end":604},"obj":"Chemical"}],"attributes":[{"id":"A1","pred":"chebi_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/CHEBI_59132"},{"id":"A2","pred":"chebi_id","subj":"T2","obj":"http://purl.obolibrary.org/obo/CHEBI_35224"},{"id":"A3","pred":"chebi_id","subj":"T3","obj":"http://purl.obolibrary.org/obo/CHEBI_73507"},{"id":"A4","pred":"chebi_id","subj":"T4","obj":"http://purl.obolibrary.org/obo/CHEBI_35224"},{"id":"A5","pred":"chebi_id","subj":"T5","obj":"http://purl.obolibrary.org/obo/CHEBI_63895"},{"id":"A6","pred":"chebi_id","subj":"T5","obj":"http://purl.obolibrary.org/obo/CHEBI_74072"},{"id":"A7","pred":"chebi_id","subj":"T7","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PD-GO-BP

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T9","span":{"begin":71,"end":77},"obj":"http://purl.obolibrary.org/obo/GO_0007613"},{"id":"T10","span":{"begin":93,"end":99},"obj":"http://purl.obolibrary.org/obo/GO_0007613"},{"id":"T11","span":{"begin":127,"end":133},"obj":"http://purl.obolibrary.org/obo/GO_0007613"},{"id":"T12","span":{"begin":228,"end":240},"obj":"http://purl.obolibrary.org/obo/GO_0009405"},{"id":"T13","span":{"begin":527,"end":549},"obj":"http://purl.obolibrary.org/obo/GO_0006954"},{"id":"T14","span":{"begin":933,"end":950},"obj":"http://purl.obolibrary.org/obo/GO_0042110"},{"id":"T15","span":{"begin":935,"end":950},"obj":"http://purl.obolibrary.org/obo/GO_0001775"},{"id":"T16","span":{"begin":997,"end":1014},"obj":"http://purl.obolibrary.org/obo/GO_0042110"},{"id":"T17","span":{"begin":999,"end":1014},"obj":"http://purl.obolibrary.org/obo/GO_0001775"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-PD-HP

{"project":"LitCovid-PD-HP","denotations":[{"id":"T2","span":{"begin":1274,"end":1285},"obj":"Phenotype"}],"attributes":[{"id":"A2","pred":"hp_id","subj":"T2","obj":"http://purl.obolibrary.org/obo/HP_0001888"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

LitCovid-sentences

{"project":"LitCovid-sentences","denotations":[{"id":"T17","span":{"begin":0,"end":256},"obj":"Sentence"},{"id":"T18","span":{"begin":257,"end":526},"obj":"Sentence"},{"id":"T19","span":{"begin":527,"end":744},"obj":"Sentence"},{"id":"T20","span":{"begin":745,"end":956},"obj":"Sentence"},{"id":"T21","span":{"begin":957,"end":1196},"obj":"Sentence"},{"id":"T22","span":{"begin":1197,"end":1310},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"SARS-CoV2 antigen-specific T cells have been identified in the central memory (CM), effector memory (EM), and CD45RA+ effector memory (EMRA) compartments (5) but the characteristics of these cells and their role in infection or pathogenesis remain unclear. Recovered subjects more often have evidence of virus-specific CD4 T cell responses than virus-specific CD8 T cell responses, though pre-existing CD4 T cell responses to other coronaviruses also are found in a subset of subjects in the absence of SARS-CoV2 exposure (6). Inflammatory responses have been reported, including increases in IL-6- or GM-CSF-producing CD4 T cells in the blood (7) or decreases in immunoregulatory subsets such as regulatory T cells (Treg) or ɣδ T cells (8–11). T cell exhaustion (12, 13) or increased inhibitory receptor expression on peripheral T cells has also been reported (7, 14), though these inhibitory receptors are also increased following T cell activation (15). Moreover, although there is evidence of T cell activation in COVID-19 patients (16), some studies have found decreases in polyfunctionality (12, 17) or cytotoxicity (12); however, these changes have not been observed in other studies (13). Furthermore, how this activation should be viewed in the context of COVID-19 lymphopenia (18–20) remains unclear."}

PMC:7402624 / 1834-3144 JSONTXT

Annnotations TAB JSON ListView MergeView

PMC:7402624 / 1834-3144 JSON TXT