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PMC:7200337 / 40985-43117 JSONTXT

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2_test

Id Subject Object Predicate Lexical cue
32505227-18832706-46575337 1667-1671 18832706 denotes 2008
T22604 1667-1671 18832706 denotes 2008

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T414 257-262 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T415 333-338 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T416 476-481 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T417 660-665 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T418 739-744 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T419 770-778 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T420 1017-1022 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T421 1261-1266 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T422 1523-1528 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T423 1541-1546 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T424 1580-1584 Body_part denotes IL-2 http://purl.org/sig/ont/fma/fma84051
T425 1595-1600 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T426 1722-1726 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T427 1879-1882 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T428 1895-1898 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T429 1942-1947 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T268 890-893 Disease denotes PMA http://purl.obolibrary.org/obo/MONDO_0016692|http://purl.obolibrary.org/obo/MONDO_0018687
T270 1033-1041 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T271 1445-1453 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T272 1456-1465 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T273 1975-1983 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T525 153-159 http://purl.obolibrary.org/obo/PR_000001852 denotes CTLA-4
T526 251-254 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T527 255-262 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T528 327-330 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T529 331-338 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T530 458-461 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T531 470-473 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T532 474-481 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T533 646-649 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T534 654-657 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T535 658-665 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T536 737-744 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T537 1011-1014 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T538 1015-1022 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T539 1129-1130 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T540 1185-1186 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T541 1255-1258 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T542 1259-1266 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T543 1376-1377 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T544 1521-1528 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T545 1535-1538 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T546 1539-1546 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T547 1580-1584 http://purl.obolibrary.org/obo/PR_000001379 denotes IL-2
T548 1589-1592 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T549 1593-1600 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T550 1656-1658 http://purl.obolibrary.org/obo/CLO_0001022 denotes Li
T551 1656-1658 http://purl.obolibrary.org/obo/CLO_0007314 denotes Li
T552 1720-1726 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T553 1936-1939 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T554 1940-1947 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T555 2011-2016 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T211 97-106 Chemical denotes molecules http://purl.obolibrary.org/obo/CHEBI_25367
T212 315-317 Chemical denotes PD http://purl.obolibrary.org/obo/CHEBI_74756
T213 863-870 Chemical denotes phorbol http://purl.obolibrary.org/obo/CHEBI_8116
T214 871-880 Chemical denotes myristate http://purl.obolibrary.org/obo/CHEBI_30807
T215 881-888 Chemical denotes acetate http://purl.obolibrary.org/obo/CHEBI_30089|http://purl.obolibrary.org/obo/CHEBI_47622
T217 890-893 Chemical denotes PMA http://purl.obolibrary.org/obo/CHEBI_37537|http://purl.obolibrary.org/obo/CHEBI_53780|http://purl.obolibrary.org/obo/CHEBI_60755
T220 899-908 Chemical denotes ionomycin http://purl.obolibrary.org/obo/CHEBI_63954
T221 1068-1076 Chemical denotes effector http://purl.obolibrary.org/obo/CHEBI_35224
T222 1395-1400 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T223 1580-1582 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T225 1656-1658 Chemical denotes Li http://purl.obolibrary.org/obo/CHEBI_30145
T226 1955-1958 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1390 115-120 Gene denotes OX-40 Gene:7293
1391 125-130 Gene denotes CD137 Gene:3604
1395 251-254 Gene denotes CD8 Gene:925
1396 321-325 Gene denotes TIM3 Gene:84868
1397 327-330 Gene denotes CD8 Gene:925
1398 458-461 Gene denotes CD8 Gene:925
1399 646-649 Gene denotes CD4 Gene:920
1400 654-657 Gene denotes CD8 Gene:925
1401 807-812 Gene denotes IFN-γ Gene:3458
1402 817-822 Gene denotes TNF-α Gene:7124
1403 1011-1014 Gene denotes CD8 Gene:925
1404 1095-1101 Gene denotes CD107a Gene:3916
1405 1120-1130 Gene denotes granzyme B Gene:3002
1406 1132-1136 Gene denotes GzmB Gene:3002
1407 1219-1223 Gene denotes GzmB Gene:3002
1408 1535-1538 Gene denotes CD4 Gene:920
1409 1562-1567 Gene denotes IFN-γ Gene:3458
1410 1569-1574 Gene denotes TNF-α Gene:7124
1411 1580-1584 Gene denotes IL-2 Gene:3558
1412 1589-1592 Gene denotes CD8 Gene:925
1413 1616-1621 Gene denotes IFN-γ Gene:3458
1414 1623-1628 Gene denotes TNF-α Gene:7124
1415 1634-1640 Gene denotes CD107a Gene:3916
1416 1936-1939 Gene denotes CD8 Gene:925
1417 2025-2029 Gene denotes GZMA Gene:3001
1418 2031-2035 Gene denotes GZMB Gene:3002
1419 2041-2045 Gene denotes GZMK Gene:3003
1420 2070-2075 Gene denotes KLRC1 Gene:3821
1421 2080-2084 Gene denotes XCL1 Gene:6375
1422 1255-1258 Gene denotes CD8 Gene:925
1423 628-630 Gene denotes to Gene:6999
1424 565-567 Gene denotes to Gene:6999
1425 501-503 Gene denotes to Gene:6999
1426 442-444 Gene denotes to Gene:6999
1427 470-473 Gene denotes CD4 Gene:920
1428 346-354 Species denotes patients Tax:9606
1429 684-692 Species denotes patients Tax:9606
1430 1284-1292 Species denotes patients Tax:9606
1431 1415-1423 Species denotes patients Tax:9606
1432 1984-1992 Species denotes patients Tax:9606
1433 863-888 Chemical denotes phorbol myristate acetate MESH:D013755
1434 890-893 Chemical denotes PMA MESH:D013755
1435 899-908 Chemical denotes ionomycin MESH:D015759
1436 669-683 Disease denotes critically ill MESH:D016638
1437 1033-1041 Disease denotes COVID-19 MESH:C000657245
1438 1445-1465 Disease denotes SARS-CoV-1 infection MESH:C000657245
1439 1975-1983 Disease denotes COVID-19 MESH:C000657245

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T222 0-225 Sentence denotes In addition, several studies reported higher expression of various co-stimulatory and inhibitory molecules such as OX-40 and CD137 (Zhou et al., 2020c), CTLA-4 and TIGIT (Zheng et al., 2020a), and NKG2a (Zheng et al., 2020b).
T223 226-395 Sentence denotes Reduced numbers of CD28+ CD8 T cells (Qin et al., 2020) as well as larger frequencies of PD-1+ TIM3+ CD8 T cells in ICU patients were also reported (Zhou et al., 2020c).
T224 396-594 Sentence denotes Expression of most of these markers was found to be higher in CD8 than in CD4 T cells, and levels tended to increase in severe versus non-severe cases, which may be due to differences in viral load.
T225 595-972 Sentence denotes Cellular functionality was shown to be impaired in CD4 and CD8 T cells of critically ill patients, with reduced frequencies of polyfunctional T cells (producing more than one cytokine) as well as generally lower IFN-γ and TNF-α production following restimulation with phorbol myristate acetate (PMA) and ionomycin (Chen et al., 2020c, Zheng et al., 2020a, Zheng et al., 2020b).
T226 973-1171 Sentence denotes Similarly, Zheng et al. reported that CD8 T cells in severe COVID-19 appear less cytotoxic and effector-like with reduced CD107a degranulation and granzyme B (GzmB) production (Zheng et al., 2020b).
T227 1172-1315 Sentence denotes In contrast, a different study found that both GzmB and perforin were increased in CD8 T cells of severely sick patients (Zheng et al., 2020a).
T228 1316-1673 Sentence denotes In accordance with the latter observation, when compared to a moderate disease group, convalescent patients with resolved severe SARS-CoV-1 infection had significantly higher frequencies of polyfunctional T cells, with CD4 T cells producing more IFN-γ, TNF-α, and IL-2 and CD8 T cells producing more IFN-γ, TNF-α, and CD107a, respectively (Li et al., 2008).
T229 1674-1865 Sentence denotes However, given the vigorous dynamics of acute T cell responses and potential differences in sample timing throughout disease course, these observations are not necessarily mutually exclusive.
T230 1866-2132 Sentence denotes Accordingly, RNA sequencing (RNA-seq) data by Liao et al. showed that CD8 T cells in the BAL fluid of severe COVID-19 patients express cytotoxic genes such as GZMA, GZMB, and GZMK at higher levels, while KLRC1 and XCL1 are enriched in mild cases (Liao et al., 2020).