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PMC:7417788 / 15258-17641 JSONTXT

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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T384 0-5 GO:0007568 denotes Aging
T385 53-61 CHEBI:35224;CHEBI:35224 denotes effector
T386 125-130 GO:0007568 denotes aging
T387 793-796 CL:0002488 denotes TCs
T388 798-801 PR:000001004 denotes CD4
T389 803-806 CL:0002488 denotes TCs
T390 828-831 CL:0002488 denotes TCs
T391 852-855 PR:000001004 denotes CD4
T392 865-878 GO:0008283 denotes proliferating
T393 879-886 CL:0000084 denotes T cells
T394 968-971 PR:000001004 denotes CD4
T395 1110-1118 CHEBI:35224;CHEBI:35224 denotes effector
T396 1120-1126 GO:0007613 denotes memory
T397 1263-1266 PR:P22807 denotes NK1
T398 1302-1305 PR:P22808 denotes NK2
T399 1315-1318 PR:P22809 denotes NK3
T400 1609-1613 PR:000001889 denotes CD14
T401 1652-1656 PR:000001483 denotes CD16
T402 1751-1755 PR:000001889 denotes CD14
T403 1813-1817 PR:000001889 denotes CD14
T404 1889-1893 PR:000001483 denotes CD16
T405 2293-2298 GO:0007568 denotes aging
T406 2310-2316 UBERON:0002405 denotes immune
T407 2340-2348 CHEBI:35224;CHEBI:35224 denotes effector
T408 2353-2370 CL:0009002 denotes inflammatory cell

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T168 90-94 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T169 179-183 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T170 202-206 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T171 277-281 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T172 341-348 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T173 710-714 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T174 734-738 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T175 881-886 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T176 1141-1145 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T177 2159-2164 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T178 2366-2370 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T35 1574-1576 Disease denotes MC http://purl.obolibrary.org/obo/MONDO_0007407
T36 1720-1722 Disease denotes MC http://purl.obolibrary.org/obo/MONDO_0007407
T37 1756-1758 Disease denotes MC http://purl.obolibrary.org/obo/MONDO_0007407
T38 2310-2328 Disease denotes immune dysfunction http://purl.obolibrary.org/obo/MONDO_0005046

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T319 45-52 http://www.ebi.ac.uk/efo/EFO_0000876 denotes extreme
T320 90-99 http://purl.obolibrary.org/obo/CL_0000000 denotes cell-type
T321 179-188 http://purl.obolibrary.org/obo/CL_0000000 denotes cell type
T322 202-212 http://purl.obolibrary.org/obo/CL_0000000 denotes cell types
T323 232-234 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T324 277-281 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T325 389-392 http://purl.obolibrary.org/obo/CLO_0050938 denotes TCs
T326 389-392 http://purl.obolibrary.org/obo/CL_0000084 denotes TCs
T327 397-400 http://purl.obolibrary.org/obo/CL_0000236 denotes BCs
T328 499-501 http://purl.obolibrary.org/obo/CLO_0001236 denotes 2A
T329 571-574 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T330 634-636 http://purl.obolibrary.org/obo/CLO_0001236 denotes 2A
T331 710-714 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T332 734-738 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T333 776-778 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T334 793-796 http://purl.obolibrary.org/obo/CLO_0050938 denotes TCs
T335 793-796 http://purl.obolibrary.org/obo/CL_0000084 denotes TCs
T336 798-801 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T337 803-806 http://purl.obolibrary.org/obo/CLO_0050938 denotes TCs
T338 803-806 http://purl.obolibrary.org/obo/CL_0000084 denotes TCs
T339 823-826 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T340 828-831 http://purl.obolibrary.org/obo/CLO_0050938 denotes TCs
T341 828-831 http://purl.obolibrary.org/obo/CL_0000084 denotes TCs
T342 852-855 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T343 856-859 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T344 879-886 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T345 909-911 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T346 952-955 http://purl.obolibrary.org/obo/CLO_0050938 denotes TCs
T347 952-955 http://purl.obolibrary.org/obo/CL_0000084 denotes TCs
T348 968-971 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T349 982-985 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T350 1000-1001 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T351 1141-1145 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T352 1203-1205 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T353 1221-1222 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T354 1395-1398 http://purl.obolibrary.org/obo/CL_0000236 denotes BCs
T355 1454-1456 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T356 1614-1617 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T357 1657-1660 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T358 1678-1681 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T359 1818-1821 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T360 1845-1848 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T361 1894-1897 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T362 1921-1922 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T363 1979-1981 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T364 2037-2040 http://purl.obolibrary.org/obo/CL_0000576 denotes MCs
T365 2076-2077 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T366 2159-2164 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T367 2190-2193 http://purl.obolibrary.org/obo/CL_0000784 denotes pDC
T368 2366-2370 http://purl.obolibrary.org/obo/GO_0005623 denotes cell

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T44 53-61 Chemical denotes effector http://purl.obolibrary.org/obo/CHEBI_35224
T45 225-227 Chemical denotes YA http://purl.obolibrary.org/obo/CHEBI_74879
T46 232-234 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T48 341-348 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T49 769-771 Chemical denotes YA http://purl.obolibrary.org/obo/CHEBI_74879
T50 776-778 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T52 909-911 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T54 912-917 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T55 1029-1031 Chemical denotes YA http://purl.obolibrary.org/obo/CHEBI_74879
T56 1032-1037 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T57 1067-1072 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T58 1110-1118 Chemical denotes effector http://purl.obolibrary.org/obo/CHEBI_35224
T59 1180-1185 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T60 1203-1205 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T62 1206-1211 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T63 1454-1456 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T65 1457-1462 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T66 1479-1481 Chemical denotes YA http://purl.obolibrary.org/obo/CHEBI_74879
T67 1482-1487 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T68 1574-1576 Chemical denotes MC http://purl.obolibrary.org/obo/CHEBI_34342
T69 1720-1722 Chemical denotes MC http://purl.obolibrary.org/obo/CHEBI_34342
T70 1756-1758 Chemical denotes MC http://purl.obolibrary.org/obo/CHEBI_34342
T71 1979-1981 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T73 1986-1988 Chemical denotes YA http://purl.obolibrary.org/obo/CHEBI_74879
T74 2340-2348 Chemical denotes effector http://purl.obolibrary.org/obo/CHEBI_35224

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T52 0-5 http://purl.obolibrary.org/obo/GO_0007568 denotes Aging
T53 125-130 http://purl.obolibrary.org/obo/GO_0007568 denotes aging
T54 282-297 http://purl.obolibrary.org/obo/GO_0006351 denotes transcriptional
T55 1120-1126 http://purl.obolibrary.org/obo/GO_0007613 denotes memory
T56 1723-1729 http://purl.obolibrary.org/obo/GO_0040007 denotes growth
T57 2293-2298 http://purl.obolibrary.org/obo/GO_0007568 denotes aging

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T67 0-72 Sentence denotes Aging shifts the cellular composition toward extreme effector phenotypes
T68 73-242 Sentence denotes To delineate how cell-type composition changed with aging, we separately compared the proportions of each cell type across major cell types between the YA and AA groups.
T69 243-364 Sentence denotes We observed changes at the single-cell transcriptional level, which were further confirmed at the protein level by CyTOF.
T70 365-557 Sentence denotes Globally, we found that TCs and BCs, especially the former, decreased by approximately 10% in all PBMCs with scRNA-seq analysis (Fig. 2A, 2B, and S5A) and by 15% with CyTOF (Figs. 2C and S5B).
T71 558-690 Sentence denotes In contrast, MCs increased by approximately 7% in scRNA-seq analysis (Figs. 2A, 2B, and S5A) and by 10% in CyTOF (Figs. 2C and S5B).
T72 691-786 Sentence denotes The composition of cell subsets across all cell lineages differed between the YA and AA groups.
T73 787-935 Sentence denotes Among TCs, CD4+ TCs were increased, CD8+ TCs were decreased, and CD4+CD8+ and proliferating T cells were increased in the AA group (Fig. 2B and 2C).
T74 936-1097 Sentence denotes Moreover, naive TCs, especially CD4 Naive and CD8 Naive, showed a common distribution in the YA group but were reduced in the aged group (P = 0.0175, Fig. 2D–G).
T75 1098-1198 Sentence denotes Conversely, effector, memory and exhausted cell subsets were dominant in the aged group (Fig. 2H–K).
T76 1199-1350 Sentence denotes The AA group also had a diminished proportion of the CD56bright NK1 population and an expansion of the NK2 and late NK3 populations (Fig. S5C and S5D).
T77 1351-1507 Sentence denotes Analysis of BC clusters revealed that Naive BCs were decreased while ABCs were mildly increased in the AA group compared to the YA group (Fig. S5E and S5F).
T78 1508-1711 Sentence denotes Our data also showed that elderly research subjects had increased MC subsets, particularly classical CD14 MCs and, to some extent, nonclassical CD16 MCs and intermediate MCs (Figs. 2L, 2M, S5G, and S5H).
T79 1712-1792 Sentence denotes Overall MC growth mainly resulted from CD14 MC enrichment (P = 0.0012, Fig. 2M).
T80 1793-2075 Sentence denotes However, given that CD14 MCs made up 70%–80% of the MCs population, the increase we observed in CD16 MCs was more remarkable as a change in the overall population proportion between the AA and YA groups, which was not observed for intermediate MCs between these groups (Fig. S5G–J).
T81 2076-2249 Sentence denotes A similar analysis of the DC subset composition showed that the percentage of cDC2 cells increased, whereas cDC1, pDC, and pre-DC decreased with age (Figs. 2N, 2O, and S5I).
T82 2250-2383 Sentence denotes In summary, these results demonstrate that aging induces an immune dysfunction shift into effector and inflammatory cell populations.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id tao:has_standard_notation
378 685-688 Gene denotes S5B Gene:5711
379 552-555 Gene denotes S5B Gene:5711
380 646-649 Mutation denotes S5A rs1280426695
381 511-514 Mutation denotes S5A rs1280426695
392 798-801 Gene denotes CD4 Gene:920
393 823-826 Gene denotes CD8 Gene:925
394 852-855 Gene denotes CD4 Gene:920
395 856-859 Gene denotes CD8 Gene:925
396 968-971 Gene denotes CD4 Gene:920
397 982-985 Gene denotes CD8 Gene:925
398 1252-1256 Gene denotes CD56 Gene:4684
399 1263-1266 Gene denotes NK1 Gene:27087
400 1302-1305 Gene denotes NK2 Gene:7080
401 1315-1318 Gene denotes NK3 Gene:4824
410 1609-1613 Gene denotes CD14 Gene:929
411 1652-1656 Gene denotes CD16 Gene:2214
412 1751-1755 Gene denotes CD14 Gene:929
413 1813-1817 Gene denotes CD14 Gene:929
414 1889-1893 Gene denotes CD16 Gene:2214
415 2154-2158 Gene denotes cDC2 Gene:983
416 1706-1709 Mutation denotes S5H p.S5H
417 2244-2247 Mutation denotes S5I p.S5I