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PMC:7402624 / 65898-67084 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T525 226-231 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T526 543-549 Body_part denotes Plasma http://purl.org/sig/ont/fma/fma62970
T527 751-759 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T528 846-853 Body_part denotes Eotaxin http://purl.org/sig/ont/fma/fma241992
T529 866-869 Body_part denotes CSF http://purl.org/sig/ont/fma/fma20935
T530 874-877 Body_part denotes CSF http://purl.org/sig/ont/fma/fma20935
T531 956-960 Body_part denotes IL-1 http://purl.org/sig/ont/fma/fma86583
T532 974-978 Body_part denotes IL-2 http://purl.org/sig/ont/fma/fma84051

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
2033 320-324 Gene denotes CD28 Gene:940
2034 325-330 Gene denotes CD49d Gene:3676
2035 834-837 Gene denotes EGF Gene:1950
2036 839-844 Gene denotes FGF-2 Gene:2247
2037 846-853 Gene denotes Eotaxin Gene:6356
2038 864-869 Gene denotes G-CSF Gene:1440
2039 871-877 Gene denotes GM-CSF Gene:1437
2040 879-885 Gene denotes IFN-α2 Gene:3440
2041 887-892 Gene denotes IFN-γ Gene:3458
2042 894-899 Gene denotes IL-10 Gene:3586
2043 921-926 Gene denotes IL-13 Gene:3596
2044 928-933 Gene denotes IL-15 Gene:3600
2045 935-941 Gene denotes IL-17A Gene:3605
2046 943-949 Gene denotes IL-1Ra Gene:3557
2047 951-954 Gene denotes HGF Gene:3082
2048 956-961 Gene denotes IL-1β Gene:3552
2049 963-968 Gene denotes CXCL9 Gene:4283
2050 969-972 Gene denotes MIG Gene:4283
2051 974-978 Gene denotes IL-2 Gene:3558
2052 980-984 Gene denotes IL-4 Gene:3565
2053 986-990 Gene denotes IL-5 Gene:3567
2054 992-996 Gene denotes IL-6 Gene:3569
2055 998-1002 Gene denotes IL-7 Gene:3574
2056 1004-1009 Gene denotes CXCL8 Gene:3576
2057 1010-1014 Gene denotes IL-8 Gene:3576
2058 1016-1022 Gene denotes CXCL10 Gene:3627
2059 1023-1028 Gene denotes IP-10 Gene:3627
2060 1030-1034 Gene denotes CCL2 Gene:6347
2061 1035-1040 Gene denotes MCP-1 Gene:6347
2062 1055-1059 Gene denotes CCL4 Gene:6351
2063 1060-1066 Gene denotes MIP-1β Gene:6351
2064 1068-1074 Gene denotes RANTES Gene:6352
2065 1076-1081 Gene denotes TNF-α Gene:7124
2066 1087-1091 Gene denotes VEGF Gene:7422
2067 11-19 Species denotes patients Tax:9606
2068 745-750 Species denotes human Tax:9606
2069 314-319 Species denotes human Tax:9606
2070 190-193 Chemical denotes PBS MESH:D007854
2071 393-397 CellLine denotes L293 CVCL:M775

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T431 407-409 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T959 157-160 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T960 157-160 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T961 197-200 http://purl.obolibrary.org/obo/CLO_0001387 denotes 4°C
T962 226-231 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T963 258-268 http://purl.obolibrary.org/obo/CLO_0001040 denotes at 1 × 105
T964 314-319 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T965 382-385 http://purl.obolibrary.org/obo/CLO_0052882 denotes CD3
T966 382-385 http://purl.obolibrary.org/obo/CLO_0053434 denotes CD3
T967 543-549 http://purl.obolibrary.org/obo/UBERON_0001969 denotes Plasma
T968 736-737 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T969 745-750 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T970 864-869 http://purl.obolibrary.org/obo/PR_000005932 denotes G-CSF
T971 951-954 http://purl.obolibrary.org/obo/CLO_0003740 denotes HGF
T972 974-978 http://purl.obolibrary.org/obo/PR_000001379 denotes IL-2
T973 1010-1014 http://purl.obolibrary.org/obo/CLO_0053704 denotes IL-8
T974 1126-1127 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T975 1147-1157 http://purl.obolibrary.org/obo/OBI_0000968 denotes instrument

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T94021 834-837 Chemical denotes EGF http://purl.obolibrary.org/obo/CHEBI_140739
T65282 871-873 Chemical denotes GM http://purl.obolibrary.org/obo/CHEBI_74120
T7701 894-896 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T70736 901-903 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T87965 911-913 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T48479 921-923 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T16150 928-930 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T29560 935-937 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T21327 943-945 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T47948 956-958 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T94087 963-968 Chemical denotes CXCL9 http://purl.obolibrary.org/obo/CHEBI_138154
T89357 974-976 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T78875 980-982 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T30910 986-988 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T92516 992-994 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T24109 998-1000 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T31035 1010-1012 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T89429 1016-1022 Chemical denotes CXCL10 http://purl.obolibrary.org/obo/CHEBI_138157
T61718 1023-1028 Chemical denotes IP-10 http://purl.obolibrary.org/obo/CHEBI_138157
T96412 1023-1025 Chemical denotes IP http://purl.obolibrary.org/obo/CHEBI_74076
T85413 1035-1038 Chemical denotes MCP http://purl.obolibrary.org/obo/CHEBI_132592|http://purl.obolibrary.org/obo/CHEBI_50099

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T135 943-949 http://purl.obolibrary.org/obo/GO_0005152 denotes IL-1Ra

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T400 0-96 Sentence denotes PBMCs from patients were thawed and rested overnight at 37°C in complete RPMI (cRPMI, table S7).
T401 97-211 Sentence denotes 96-well flat bottom plates were coated with 1 μg/mL of anti-CD3 (UCHT1, #BE0231, BioXell) in PBS at 4°C overnight.
T402 212-297 Sentence denotes The next day, cells were collected and plated at 1 × 105/well in 100 μl in duplicate.
T403 298-411 Sentence denotes 2 μg/mL of anti-human CD28/CD49d was added to the wells containing plate-bound anti-CD3 (Clone L293, 347690, BD).
T404 412-542 Sentence denotes PBMCs were stimulated or left unstimulated for 16 hours, spun down (1200 rpm, 10 min) and 85 μL/well of supernatant was collected.
T405 543-665 Sentence denotes Plasma from matched subjects was thawed on ice, spun (3000 rpm, 1 min) to remove debris, and 85 μl collected in duplicate.
T406 666-813 Sentence denotes Luminex assay was run according to manufacturer’s instructions, using a custom human cytokine 31-plex panel (EMD Millipore Corporation, SPRCUS707).
T407 814-1092 Sentence denotes The panel included: EGF, FGF-2, Eotaxin, sIL-2Ra, G-CSF, GM-CSF, IFN-α2, IFN-γ, IL-10, IL-12P40, IL-12P70, IL-13, IL-15, IL-17A, IL-1Ra, HGF, IL-1β, CXCL9/MIG, IL-2, IL-4, IL-5, IL-6, IL-7, CXCL8/IL-8, CXCL10/IP-10, CCL2/MCP-1, CCL3/MIP-1α, CCL4/MIP-1β, RANTES, TNF-α, and VEGF.
T408 1093-1186 Sentence denotes Assay plates were measured using a Luminex FlexMAP 3D instrument (Thermofisher, Cat#APX1342).