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PMC:7402624 / 26492-28081 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T212 2-6 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T213 77-81 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T214 177-180 Body_part denotes IgD http://purl.org/sig/ont/fma/fma62876
T215 212-215 Body_part denotes IgD http://purl.org/sig/ont/fma/fma62876
T216 232-237 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T217 308-311 Body_part denotes IgD http://purl.org/sig/ont/fma/fma62876
T218 315-320 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T219 336-338 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T220 403-405 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T221 440-445 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T222 541-543 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T223 633-635 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T224 727-731 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T225 945-947 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T226 1074-1078 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T227 1155-1160 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T228 1223-1228 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T229 1257-1261 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T230 1435-1437 Body_part denotes PB http://purl.org/sig/ont/fma/fma84371
T231 1501-1505 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1000 181-185 Gene denotes CD27 Gene:939
1001 216-220 Gene denotes CD27 Gene:939
1002 303-307 Gene denotes CD27 Gene:939
1003 325-329 Gene denotes CD27 Gene:939
1004 330-334 Gene denotes CD38 Gene:952
1005 1025-1030 Gene denotes CXCR5 Gene:643
1006 1127-1132 Gene denotes CXCR5 Gene:643
1007 1217-1220 Gene denotes CD4 Gene:920
1008 1426-1430 Gene denotes IL-6 Gene:3569
1009 119-127 Species denotes patients Tax:9606
1010 483-488 Species denotes Ebola Tax:1570291
1011 584-592 Species denotes patients Tax:9606
1012 613-621 Species denotes patients Tax:9606
1013 759-767 Species denotes patients Tax:9606
1014 994-1002 Species denotes patients Tax:9606
1015 1099-1107 Species denotes patients Tax:9606
1016 403-405 Chemical denotes PB
1017 541-543 Chemical denotes PB
1018 633-635 Chemical denotes PB
1019 937-941 Chemical denotes KI67
1020 945-947 Chemical denotes PB
1021 1347-1355 Chemical denotes steroids MESH:D013256
1022 43-51 Disease denotes COVID-19 MESH:C000657245
1023 110-118 Disease denotes COVID-19 MESH:C000657245
1024 138-140 Disease denotes HD MESH:D006816
1025 492-515 Disease denotes Dengue virus infections MESH:D003715
1026 659-661 Disease denotes HD MESH:D006816
1027 750-758 Disease denotes COVID-19 MESH:C000657245
1028 879-888 Disease denotes infection MESH:D007239
1029 896-907 Disease denotes lymphopenia MESH:D008231
1030 985-993 Disease denotes COVID-19 MESH:C000657245
1031 1015-1017 Disease denotes HD MESH:D006816
1032 1090-1098 Disease denotes COVID-19 MESH:C000657245
1033 1295-1307 Disease denotes co-infection MESH:D060085
1034 1528-1536 Disease denotes COVID-19 MESH:C000657245
1035 1576-1588 Disease denotes inflammation MESH:D007249

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T193 43-51 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T194 110-118 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T195 132-134 Disease denotes RD http://purl.obolibrary.org/obo/MONDO_0009973
T196 138-140 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T197 336-338 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T198 403-405 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T199 483-488 Disease denotes Ebola http://purl.obolibrary.org/obo/MONDO_0005737
T200 492-498 Disease denotes Dengue http://purl.obolibrary.org/obo/MONDO_0005502
T201 499-515 Disease denotes virus infections http://purl.obolibrary.org/obo/MONDO_0005108
T202 541-543 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T203 633-635 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T204 659-661 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T205 666-668 Disease denotes RD http://purl.obolibrary.org/obo/MONDO_0009973
T206 750-758 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T207 879-888 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T208 896-907 Disease denotes lymphopenia http://purl.obolibrary.org/obo/MONDO_0003783
T209 945-947 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T210 985-993 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T211 1015-1017 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T212 1021-1023 Disease denotes RD http://purl.obolibrary.org/obo/MONDO_0009973
T213 1090-1098 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T214 1298-1307 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T215 1309-1327 Disease denotes immune suppression http://purl.obolibrary.org/obo/MONDO_0007816
T216 1435-1437 Disease denotes PB http://purl.obolibrary.org/obo/MONDO_0019035
T217 1528-1536 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T218 1576-1588 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T462 0-6 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell
T463 75-81 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell
T464 132-134 http://purl.obolibrary.org/obo/CLO_0008770 denotes RD
T465 181-185 http://purl.obolibrary.org/obo/PR_000001963 denotes CD27
T466 216-220 http://purl.obolibrary.org/obo/PR_000001963 denotes CD27
T467 230-237 http://purl.obolibrary.org/obo/CL_0000236 denotes B cells
T468 303-307 http://purl.obolibrary.org/obo/PR_000001963 denotes CD27
T469 313-320 http://purl.obolibrary.org/obo/CL_0000236 denotes B cells
T470 325-329 http://purl.obolibrary.org/obo/PR_000001963 denotes CD27
T471 330-334 http://purl.obolibrary.org/obo/PR_000001408 denotes CD38
T472 378-379 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T473 384-385 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T474 438-445 http://purl.obolibrary.org/obo/CL_0000236 denotes B cells
T475 499-504 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T476 666-668 http://purl.obolibrary.org/obo/CLO_0008770 denotes RD
T477 725-731 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell
T478 807-809 http://purl.obolibrary.org/obo/CLO_0001387 denotes 4C
T479 838-839 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T480 1021-1023 http://purl.obolibrary.org/obo/CLO_0008770 denotes RD
T481 1072-1078 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell
T482 1153-1160 http://purl.obolibrary.org/obo/CL_0000236 denotes B cells
T483 1211-1228 http://purl.obolibrary.org/obo/CL_0000895 denotes naïve CD4 T cells
T484 1255-1261 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell
T485 1391-1392 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T486 1499-1505 http://purl.obolibrary.org/obo/CL_0000236 denotes B cell

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T164 132-134 Chemical denotes RD http://purl.obolibrary.org/obo/CHEBI_73812
T165 138-140 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T166 336-338 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686
T168 403-405 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686
T170 541-543 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686
T172 633-635 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686
T174 659-661 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T175 666-668 Chemical denotes RD http://purl.obolibrary.org/obo/CHEBI_73812
T176 795-800 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T177 852-859 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T178 945-947 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686
T180 1015-1017 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T181 1021-1023 Chemical denotes RD http://purl.obolibrary.org/obo/CHEBI_73812
T182 1347-1355 Chemical denotes steroids http://purl.obolibrary.org/obo/CHEBI_35341
T183 1426-1428 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T185 1435-1437 Chemical denotes PB http://purl.obolibrary.org/obo/CHEBI_53319|http://purl.obolibrary.org/obo/CHEBI_60686

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T64 223-229 http://purl.obolibrary.org/obo/GO_0007613 denotes memory
T65 1576-1588 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T9 896-907 Phenotype denotes lymphopenia http://purl.obolibrary.org/obo/HP_0001888

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T159 0-60 Sentence denotes B cell subpopulations were also altered in COVID-19 disease.
T160 61-275 Sentence denotes Whereas naïve B cell frequencies were similar in COVID-19 patients and RD or HD, the frequencies of class-switched (IgD−CD27+) and not-class-switched (IgD+CD27+) memory B cells were significantly reduced (Fig. 4A).
T161 276-387 Sentence denotes Conversely, frequencies of CD27−IgD− B cells and CD27+CD38+ PB were often robustly increased (Fig. 4, A and B).
T162 388-525 Sentence denotes In some cases, PB represented >30% of circulating B cells, similar to levels observed in acute Ebola or Dengue virus infections (42, 43).
T163 526-679 Sentence denotes However, these PB responses were only observed in ~2/3 of patients, with the remaining patients displaying PB frequencies similar to HD and RD (Fig. 4B).
T164 680-811 Sentence denotes KI67 expression was markedly elevated in all B cell subpopulations in COVID-19 patients compared to either control group (Fig. 4C).
T165 812-929 Sentence denotes This observation suggests a role for an antigen-driven response to infection and/or lymphopenia-driven proliferation.
T166 930-1024 Sentence denotes Higher KI67 in PB may reflect recent generation in the COVID-19 patients compared to HD or RD.
T167 1025-1118 Sentence denotes CXCR5 expression was also reduced on all major B cell subsets in COVID-19 patients (Fig. 4D).
T168 1119-1239 Sentence denotes Loss of CXCR5 was not specific to B cells, however, as expression was also decreased on non-naïve CD4 T cells (Fig. 4E).
T169 1240-1462 Sentence denotes Changes in the B cell subsets were not associated with co-infection, immune suppression, or treatment with steroids or other clinical features, though a possible negative association of IL-6 and PB was revealed (fig. S5A).
T170 1463-1589 Sentence denotes These observations suggest that the B cell response phenotype of COVID-19 disease was not simply due to systemic inflammation.

2_test

Id Subject Object Predicate Lexical cue
32669297-25775592-135105208 517-519 25775592 denotes 42
32669297-22238318-135105209 521-523 22238318 denotes 43