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PMC:7402624 / 24155-26371 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T190 179-189 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981
T191 190-199 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T192 329-333 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T193 393-399 Body_part denotes plasma http://purl.org/sig/ont/fma/fma62970
T194 574-579 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T195 618-621 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T196 638-643 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T197 716-722 Body_part denotes plasma http://purl.org/sig/ont/fma/fma62970
T198 926-936 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981
T199 968-979 Body_part denotes eosinophils http://purl.org/sig/ont/fma/fma62861
T200 981-988 Body_part denotes eotaxin http://purl.org/sig/ont/fma/fma241992
T201 1005-1010 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T202 1352-1359 Body_part denotes eotaxin http://purl.org/sig/ont/fma/fma241992
T203 1505-1511 Body_part denotes plasma http://purl.org/sig/ont/fma/fma62970
T204 1571-1576 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T205 1728-1733 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T206 1904-1909 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T207 2150-2159 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T208 2164-2174 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981
T209 2205-2215 Body_part denotes chemokines http://purl.org/sig/ont/fma/fma241981

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T11 574-579 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T12 638-643 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
908 211-217 Gene denotes IL-1RA Gene:3557
909 219-223 Gene denotes IL-6 Gene:3569
910 225-229 Gene denotes IL-8 Gene:3576
911 231-236 Gene denotes IL-10 Gene:3586
912 242-248 Gene denotes CXCL10 Gene:3627
913 442-446 Gene denotes CD28 Gene:940
914 723-729 Gene denotes CXCL10 Gene:3627
915 854-859 Gene denotes CXCL9 Gene:4283
916 861-865 Gene denotes CCL2 Gene:6347
917 871-877 Gene denotes IL-1RA Gene:3557
918 981-988 Gene denotes eotaxin Gene:6356
919 1012-1016 Gene denotes CCL5 Gene:6352
920 1034-1038 Gene denotes IL-6 Gene:3569
921 1174-1178 Gene denotes IL-6 Gene:3569
922 1338-1342 Gene denotes CCL2 Gene:6347
923 1344-1350 Gene denotes CXCL10 Gene:3627
924 1352-1359 Gene denotes eotaxin Gene:6356
925 1365-1371 Gene denotes IL-1RA Gene:3557
926 1421-1427 Gene denotes CXCL10 Gene:3627
927 1432-1436 Gene denotes CCL2 Gene:6347
928 1565-1568 Gene denotes CD8 Gene:925
929 1626-1630 Gene denotes IFNɣ Gene:3458
930 1722-1725 Gene denotes CD8 Gene:925
931 1782-1786 Gene denotes IFNɣ Gene:3458
932 1921-1925 Gene denotes IFNɣ Gene:3458
933 99-107 Species denotes patients Tax:9606
934 489-497 Species denotes patients Tax:9606
935 566-573 Species denotes patient Tax:9606
936 608-617 Species denotes SARS-CoV2 Tax:2697049
937 703-711 Species denotes patients Tax:9606
938 1073-1081 Species denotes patients Tax:9606
939 1315-1323 Species denotes patients Tax:9606
940 1748-1756 Species denotes patients Tax:9606
941 1823-1831 Species denotes patients Tax:9606
942 1960-1968 Species denotes patients Tax:9606
943 2003-2011 Species denotes patients Tax:9606
944 2119-2127 Species denotes patients Tax:9606
945 1680-1685 Chemical denotes ɑCD28
946 17-25 Disease denotes COVID-19 MESH:C000657245
947 480-488 Disease denotes COVID-19 MESH:C000657245
948 502-504 Disease denotes HD MESH:D006816
949 557-565 Disease denotes COVID-19 MESH:C000657245
950 694-702 Disease denotes COVID-19 MESH:C000657245
951 776-778 Disease denotes HD MESH:D006816
952 1236-1248 Disease denotes inflammation MESH:D007249
953 1306-1314 Disease denotes COVID-19 MESH:C000657245
954 1377-1379 Disease denotes HD MESH:D006816
955 1582-1590 Disease denotes COVID-19 MESH:C000657245
956 1739-1747 Disease denotes COVID-19 MESH:C000657245
957 1761-1763 Disease denotes HD MESH:D006816
958 1814-1822 Disease denotes COVID-19 MESH:C000657245
959 2110-2118 Disease denotes COVID-19 MESH:C000657245

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T176 17-25 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T177 480-488 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T178 502-504 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T179 557-565 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T180 608-612 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T181 694-702 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T182 776-778 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T183 1236-1248 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T184 1306-1314 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T185 1377-1379 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T186 1582-1590 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T187 1739-1747 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T188 1761-1763 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T189 1814-1822 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T190 2110-2118 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T436 0-1 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T437 225-229 http://purl.obolibrary.org/obo/CLO_0053704 denotes IL-8
T438 250-256 http://purl.obolibrary.org/obo/CLO_0001044 denotes 11, 41
T439 327-333 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T440 393-399 http://purl.obolibrary.org/obo/UBERON_0001969 denotes plasma
T441 433-436 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T442 433-436 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T443 468-469 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T444 574-579 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T445 574-579 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T446 638-643 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T447 638-643 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T448 716-722 http://purl.obolibrary.org/obo/UBERON_0001969 denotes plasma
T449 823-824 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T450 993-1002 http://purl.obolibrary.org/obo/CLO_0001658 denotes activated
T451 1003-1010 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T452 1124-1130 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T453 1505-1511 http://purl.obolibrary.org/obo/UBERON_0001969 denotes plasma
T454 1565-1568 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T455 1569-1576 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T456 1722-1725 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T457 1726-1733 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T458 1902-1909 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T459 2096-2097 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T460 2128-2131 http://purl.obolibrary.org/obo/CLO_0051582 denotes has

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T135 211-213 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T137 219-221 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T139 225-227 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T141 231-233 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T143 242-248 Chemical denotes CXCL10 http://purl.obolibrary.org/obo/CHEBI_138157
T144 502-504 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T145 723-729 Chemical denotes CXCL10 http://purl.obolibrary.org/obo/CHEBI_138157
T146 776-778 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T147 854-859 Chemical denotes CXCL9 http://purl.obolibrary.org/obo/CHEBI_138154
T148 871-873 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T150 1034-1036 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T152 1064-1069 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T153 1174-1176 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T155 1344-1350 Chemical denotes CXCL10 http://purl.obolibrary.org/obo/CHEBI_138157
T156 1365-1367 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T158 1377-1379 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T159 1386-1388 Chemical denotes S4 http://purl.obolibrary.org/obo/CHEBI_29401
T160 1421-1427 Chemical denotes CXCL10 http://purl.obolibrary.org/obo/CHEBI_138157
T161 1761-1763 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T162 1874-1876 Chemical denotes S4 http://purl.obolibrary.org/obo/CHEBI_29401
T163 2032-2034 Chemical denotes S4 http://purl.obolibrary.org/obo/CHEBI_29401

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T58 54-75 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammatory response
T59 211-217 http://purl.obolibrary.org/obo/GO_0005152 denotes IL-1RA
T60 871-877 http://purl.obolibrary.org/obo/GO_0005152 denotes IL-1RA
T61 1236-1248 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation
T62 1365-1371 http://purl.obolibrary.org/obo/GO_0005152 denotes IL-1RA

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T146 0-258 Sentence denotes A key feature of COVID-19 disease is thought to be an inflammatory response that, at least in some patients, is linked to clinical disease manifestation (2, 4) and high levels of chemokines/cytokines, including IL-1RA, IL-6, IL-8, IL-10, and CXCL10 (11, 41).
T147 259-514 Sentence denotes To investigate the potential connection of inflammatory pathways to T cell responses, we performed 31-plex Luminex analysis on paired plasma and culture supernatants of anti-CD3/anti-CD28 stimulated PBMC from a subset of COVID-19 patients and HD controls.
T148 515-679 Sentence denotes Due to biosafety restrictions, only eight COVID-19 patient blood samples that were confirmed SARS-CoV2 RNA negative in the blood by PCR could be studied (fig. S4A).
T149 680-853 Sentence denotes Half of these COVID-19 patients had plasma CXCL10 concentrations that were ~15 fold higher than HD controls, whereas the remainder showed only a limited increase (fig. S4B).
T150 854-912 Sentence denotes CXCL9, CCL2, and IL-1RA were also significantly increased.
T151 913-1033 Sentence denotes In contrast, chemokines involved in the recruitment of eosinophils (eotaxin) or activated T cells (CCL5) were decreased.
T152 1034-1263 Sentence denotes IL-6 was not elevated in this group of patients, in contrast to the subset of individuals tested clinically (fig. S1B), potentially because IL-6 was measured in the hospital setting often when systemic inflammation was suspected.
T153 1264-1531 Sentence denotes Following stimulation in vitro, PBMC from COVID-19 patients produced more CCL2, CXCL10, eotaxin, and IL-1RA than HD (fig. S4, C and D) and concentrations of CXCL10 and CCL2 correlated between the matched supernatant from stimulated PBMC and plasma samples (fig. S4E).
T154 1532-1664 Sentence denotes Finally, we investigated whether CD8 T cells from COVID-19 subjects were capable of producing IFNɣ following polyclonal stimulation.
T155 1665-1886 Sentence denotes Following ɑCD3+ɑCD28 stimulation, similar proportions of CD8 T cells from COVID-19 patients and HD controls produced IFNɣ, suggesting that PBMC from COVID-19 patients were responsive to TCR crosslinking (fig. S4, F to H).
T156 1887-2044 Sentence denotes The ability of T cells to produce IFNɣ following stimulation occurred in patients with increases in KI67 as well as patients with low KI67 (fig. S4, F to H).
T157 2045-2216 Sentence denotes Taken together, these data support the notion that a subgroup of COVID-19 patients has elevated systemic cytokines and chemokines, including myeloid recruiting chemokines.

2_test

Id Subject Object Predicate Lexical cue
32669297-32303591-135105206 154-155 32303591 denotes 2
32669297-32505227-135105207 157-158 32505227 denotes 4