PMC:7417788 / 26097-27296
Annnotations
LitCovid-PMC-OGER-BB
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T612 | 38-43 | GO:0007568 | denotes | aging |
T613 | 292-298 | PR:P25859 | denotes | cDC2-B |
T614 | 305-315 | GO:0010467 | denotes | expression |
T615 | 329-333 | PR:P24100 | denotes | cDC2 |
T616 | 351-358 | CHEBI:59132;CHEBI:59132;GO:0019882 | denotes | antigen |
T617 | 359-371 | GO:0019882 | denotes | presentation |
T618 | 380-385 | SO:0000704 | denotes | genes |
T619 | 394-397 | PR:000003858 | denotes | AHR |
T620 | 399-405 | PR:000005570 | denotes | CLEC4E |
T621 | 411-418 | PR:000005559 | denotes | CLEC12A |
T622 | 432-442 | GO:0010467 | denotes | expression |
T623 | 456-460 | PR:P25859 | denotes | cDC2 |
T624 | 461-468 | CL:0000236 | denotes | B cells |
T625 | 495-500 | GO:0007568 | denotes | aging |
T626 | 512-517 | SO:0000704 | denotes | genes |
T627 | 541-546 | SO:0000704 | denotes | genes |
T628 | 548-552 | PR:000001136 | denotes | IL1B |
T629 | 554-560 | PR:000005279 | denotes | CDKN2D |
T630 | 562-567 | PR:000006348 | denotes | DDIT4 |
T631 | 569-574 | PR:000001395 | denotes | CXCL8 |
T632 | 580-585 | PR:000006746 | denotes | DUSP2 |
T633 | 700-704 | PR:P24100 | denotes | cDC2 |
T634 | 718-724 | UBERON:0002405 | denotes | immune |
T635 | 725-735 | GO:0065007 | denotes | regulation |
T636 | 740-747 | CHEBI:59132;CHEBI:59132;GO:0019882 | denotes | antigen |
T637 | 748-760 | GO:0019882 | denotes | presentation |
T638 | 777-782 | GO:0007568 | denotes | aging |
T639 | 791-797 | PR:P25859 | denotes | cDC2-B |
T640 | 808-816 | PR:000002014 | denotes | HLA-DQA2 |
T641 | 817-827 | GO:0010467 | denotes | expression |
T642 | 969-976 | PR:000005559 | denotes | CLEC12A |
T643 | 1002-1007 | GO:0007568 | denotes | aging |
T644 | 1079-1084 | GO:0007568 | denotes | aging |
T645 | 1097-1104 | CHEBI:59132;CHEBI:59132;GO:0019882 | denotes | antigen |
T646 | 1105-1117 | GO:0019882 | denotes | presentation |
T647 | 1159-1164 | GO:0007568 | denotes | aging |
T648 | 1176-1180 | SO:0000704;GO:0010467 | denotes | gene |
T649 | 1181-1191 | GO:0010467 | denotes | expression |
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T236 | 117-120 | Body_part | denotes | map | http://purl.org/sig/ont/fma/fma67847 |
T237 | 132-137 | Body_part | denotes | Cells | http://purl.org/sig/ont/fma/fma68646 |
T238 | 217-222 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T239 | 336-341 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T240 | 463-468 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T241 | 808-811 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T242 | 917-921 | Body_part | denotes | IL-1 | http://purl.org/sig/ont/fma/fma86583 |
T243 | 917-919 | Body_part | denotes | IL | http://purl.org/sig/ont/fma/fma86578 |
T244 | 1176-1180 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
LitCovid-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T45 | 113-116 | Disease | denotes | SNE | http://purl.obolibrary.org/obo/MONDO_0018859 |
T46 | 1011-1015 | Disease | denotes | FACS | http://purl.obolibrary.org/obo/MONDO_0018262 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T511 | 132-137 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | Cells |
T512 | 205-206 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T513 | 217-222 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
T514 | 226-228 | http://purl.obolibrary.org/obo/CLO_0001627 | denotes | AA |
T515 | 269-273 | http://purl.obolibrary.org/obo/CLO_0001302 | denotes | 3, 4 |
T516 | 282-284 | http://purl.obolibrary.org/obo/CLO_0053733 | denotes | 11 |
T517 | 297-298 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
T518 | 334-335 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T519 | 336-341 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
T520 | 380-385 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
T521 | 461-468 | http://purl.obolibrary.org/obo/CL_0000236 | denotes | B cells |
T522 | 512-517 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
T523 | 541-546 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
T524 | 548-552 | http://purl.obolibrary.org/obo/PR_000001136 | denotes | IL1B |
T525 | 705-706 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T526 | 796-797 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
T527 | 861-870 | http://purl.obolibrary.org/obo/SO_0000418 | denotes | signaling |
T528 | 922-931 | http://purl.obolibrary.org/obo/SO_0000418 | denotes | signaling |
T529 | 1176-1180 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
T530 | 1195-1198 | http://purl.obolibrary.org/obo/CL_0000451 | denotes | DCs |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T163 | 147-149 | Chemical | denotes | YA | http://purl.obolibrary.org/obo/CHEBI_74879 |
T164 | 150-155 | Chemical | denotes | group | http://purl.obolibrary.org/obo/CHEBI_24433 |
T165 | 226-228 | Chemical | denotes | AA | http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816 |
T167 | 229-234 | Chemical | denotes | group | http://purl.obolibrary.org/obo/CHEBI_24433 |
T168 | 351-358 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
T169 | 740-747 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
T170 | 917-919 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
T172 | 1097-1104 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
LitCovid-PD-GO-BP
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T139 | 38-43 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T140 | 351-371 | http://purl.obolibrary.org/obo/GO_0019882 | denotes | antigen presentation |
T141 | 495-500 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T142 | 725-735 | http://purl.obolibrary.org/obo/GO_0065007 | denotes | regulation |
T143 | 740-760 | http://purl.obolibrary.org/obo/GO_0019882 | denotes | antigen presentation |
T144 | 777-782 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T145 | 861-879 | http://purl.obolibrary.org/obo/GO_0007165 | denotes | signaling pathways |
T146 | 861-870 | http://purl.obolibrary.org/obo/GO_0023052 | denotes | signaling |
T147 | 893-912 | http://purl.obolibrary.org/obo/GO_0001666 | denotes | response to hypoxia |
T148 | 922-931 | http://purl.obolibrary.org/obo/GO_0023052 | denotes | signaling |
T149 | 1002-1007 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T150 | 1079-1084 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T151 | 1097-1117 | http://purl.obolibrary.org/obo/GO_0019882 | denotes | antigen presentation |
T152 | 1159-1164 | http://purl.obolibrary.org/obo/GO_0007568 | denotes | aging |
T153 | 1176-1191 | http://purl.obolibrary.org/obo/GO_0010467 | denotes | gene expression |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T131 | 0-131 | Sentence | denotes | Within DC clusters, we found distinct aging manifestations in the cDC2 subsets by comparing DC clusters in the t-SNE map (Fig. 3J). |
T132 | 132-300 | Sentence | denotes | Cells from the YA group grouped together in clusters 0 and 1 (named cDC2-A), whereas cells in AA group grouped distinctively in clusters 3, 4, 10 and 11 (named cDC2-B). |
T133 | 301-605 | Sentence | denotes | The expression signature of cDC2-A cells included antigen presentation-related genes such as AHR, CLEC4E, and CLEC12A, whereas the expression signature of cDC2-B cells included inflammatory and aging-associated genes such as IFN-stimulated genes, IL1B, CDKN2D, DDIT4, CXCL8, and DUSP2 (Fig. S7J and S7K). |
T134 | 606-942 | Sentence | denotes | Moreover, the comparative functional analysis of DEGs between the two clusters indicated that cDC2-A had intact immune regulation and antigen presentation function, while aging-related cDC2-B with high HLA-DQA2 expression exhibited increased inflammatory signaling pathways, such as the response to hypoxia and IL-1 signaling (Fig. 3K). |
T135 | 943-1033 | Sentence | denotes | We further confirmed that CLEC12A+ cDC2s were decreased in aging by FACS (Fig. 3L and 3M). |
T136 | 1034-1199 | Sentence | denotes | Taken together, these findings indicate that aging curtails DC antigen presentation ability and upregulates inflammatory and aging-associated gene expression in DCs. |
LitCovid-PD-HP
Id | Subject | Object | Predicate | Lexical cue | hp_id |
---|---|---|---|---|---|
T6 | 905-912 | Phenotype | denotes | hypoxia | http://purl.obolibrary.org/obo/HP_0012418 |
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
590 | 66-70 | Gene | denotes | cDC2 | Gene:983 |
591 | 394-397 | Gene | denotes | AHR | Gene:196 |
592 | 399-405 | Gene | denotes | CLEC4E | Gene:26253 |
593 | 411-418 | Gene | denotes | CLEC12A | Gene:160364 |
594 | 548-552 | Gene | denotes | IL1B | Gene:3553 |
595 | 554-560 | Gene | denotes | CDKN2D | Gene:1032 |
596 | 562-567 | Gene | denotes | DDIT4 | Gene:54541 |
597 | 569-574 | Gene | denotes | CXCL8 | Gene:3576 |
598 | 580-585 | Gene | denotes | DUSP2 | Gene:1844 |
599 | 808-816 | Gene | denotes | HLA-DQA2 | Gene:3118 |
600 | 917-921 | Gene | denotes | IL-1 | Gene:3553 |
601 | 969-976 | Gene | denotes | CLEC12A | Gene:160364 |
602 | 978-982 | Gene | denotes | cDC2 | Gene:983 |
603 | 329-333 | Gene | denotes | cDC2 | Gene:983 |
604 | 526-529 | Gene | denotes | IFN | Gene:3439 |
605 | 905-912 | Disease | denotes | hypoxia | MESH:D000860 |