PMC:7252096 / 21226-26785
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T83438 | 17-28 | Body_part | denotes | Enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T65378 | 101-108 | Body_part | denotes | tissues | http://purl.org/sig/ont/fma/fma9637 |
| T9882 | 129-134 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T89901 | 214-236 | Body_part | denotes | gastrointestinal tract | http://purl.org/sig/ont/fma/fma71132 |
| T88536 | 385-392 | Body_part | denotes | tissues | http://purl.org/sig/ont/fma/fma9637 |
| T21957 | 417-419 | Body_part | denotes | v1 | http://purl.org/sig/ont/fma/fma13444|http://purl.org/sig/ont/fma/fma68614 |
| T95391 | 461-466 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T11642 | 481-496 | Body_part | denotes | small intestine | http://purl.org/sig/ont/fma/fma7200 |
| T30488 | 521-526 | Body_part | denotes | ileum | http://purl.org/sig/ont/fma/fma7208 |
| T13237 | 528-535 | Body_part | denotes | jejunum | http://purl.org/sig/ont/fma/fma7207 |
| T69721 | 566-571 | Body_part | denotes | liver | http://purl.org/sig/ont/fma/fma7197 |
| T5693 | 576-581 | Body_part | denotes | colon | http://purl.org/sig/ont/fma/fma14543 |
| T77712 | 693-699 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T69726 | 733-737 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T55700 | 823-830 | Body_part | denotes | neurons | http://purl.org/sig/ont/fma/fma54527 |
| T16464 | 840-845 | Body_part | denotes | brain | http://purl.org/sig/ont/fma/fma50801 |
| T10701 | 858-863 | Body_part | denotes | ileum | http://purl.org/sig/ont/fma/fma7208 |
| T64370 | 886-891 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T98932 | 906-917 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T28345 | 969-974 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T60054 | 1111-1122 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T7974 | 1324-1335 | Body_part | denotes | Enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T60970 | 1399-1406 | Body_part | denotes | tissues | http://purl.org/sig/ont/fma/fma9637 |
| T65842 | 1446-1451 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T24294 | 1501-1506 | Body_part | denotes | ileum | http://purl.org/sig/ont/fma/fma7208 |
| T95429 | 1556-1558 | Body_part | denotes | v1 | http://purl.org/sig/ont/fma/fma13444|http://purl.org/sig/ont/fma/fma68614 |
| T28910 | 1599-1603 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T12566 | 1686-1691 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T70855 | 1703-1707 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T97171 | 1756-1760 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T41870 | 1822-1827 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T35167 | 1835-1839 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T81398 | 1864-1868 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T49285 | 1976-1981 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T33426 | 2056-2060 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T34437 | 2107-2112 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T87290 | 2169-2174 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T67772 | 2284-2300 | Body_part | denotes | epithelial cells | http://purl.org/sig/ont/fma/fma66768 |
| T47483 | 2295-2300 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T93925 | 2352-2354 | Body_part | denotes | v2 | http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615 |
| T1418 | 2444-2448 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T35427 | 2510-2515 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T12356 | 2523-2527 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T82196 | 2552-2556 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T6386 | 2664-2669 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T73171 | 2744-2748 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T15028 | 2795-2800 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T2939 | 2959-2962 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T67027 | 3149-3163 | Body_part | denotes | terminal ileum | http://purl.org/sig/ont/fma/fma14966 |
| T83560 | 3271-3273 | Body_part | denotes | v2 | http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615 |
| T46338 | 3316-3321 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T87362 | 3366-3377 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T54521 | 3507-3512 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T50831 | 3527-3543 | Body_part | denotes | epithelial cells | http://purl.org/sig/ont/fma/fma66768 |
| T62270 | 3538-3543 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T79033 | 3672-3677 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T15446 | 3890-3895 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T86947 | 3985-3990 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T44331 | 4071-4081 | Body_part | denotes | intestinal | http://purl.org/sig/ont/fma/fma7199 |
| T57529 | 4130-4141 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T89766 | 4455-4466 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T312 | 4703-4708 | Body_part | denotes | Ileum | http://purl.org/sig/ont/fma/fma7208 |
| T313 | 4763-4768 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T314 | 4798-4803 | Body_part | denotes | ileum | http://purl.org/sig/ont/fma/fma7208 |
| T315 | 4843-4845 | Body_part | denotes | v2 | http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615 |
| T317 | 4863-4868 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T318 | 5034-5050 | Body_part | denotes | epithelial cells | http://purl.org/sig/ont/fma/fma66768 |
| T319 | 5045-5050 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T320 | 5094-5109 | Body_part | denotes | epithelial cell | http://purl.org/sig/ont/fma/fma66768 |
| T87682 | 5105-5109 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T322 | 5154-5159 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T323 | 5163-5167 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T324 | 5207-5212 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T325 | 5230-5235 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T326 | 5373-5384 | Body_part | denotes | enterocytes | http://purl.org/sig/ont/fma/fma62122 |
| T327 | 5526-5531 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T328 | 5552-5557 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T40 | 481-496 | Body_part | denotes | small intestine | http://purl.obolibrary.org/obo/UBERON_0002108 |
| T41 | 487-496 | Body_part | denotes | intestine | http://purl.obolibrary.org/obo/UBERON_0000160 |
| T42 | 521-526 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T43 | 528-535 | Body_part | denotes | jejunum | http://purl.obolibrary.org/obo/UBERON_0002115 |
| T44 | 566-571 | Body_part | denotes | liver | http://purl.obolibrary.org/obo/UBERON_0002107 |
| T45 | 576-581 | Body_part | denotes | colon | http://purl.obolibrary.org/obo/UBERON_0001155 |
| T46 | 693-699 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T47 | 840-845 | Body_part | denotes | brain | http://purl.obolibrary.org/obo/UBERON_0000955 |
| T48 | 858-863 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T49 | 1501-1506 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T50 | 3158-3163 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T51 | 4703-4708 | Body_part | denotes | Ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T52 | 4798-4803 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T109 | 58-66 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T110 | 58-62 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T111 | 188-196 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T112 | 595-599 | Disease | denotes | STAR | http://purl.obolibrary.org/obo/MONDO_0010408 |
| T113 | 3010-3019 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T114 | 3451-3455 | Disease | denotes | STAR | http://purl.obolibrary.org/obo/MONDO_0010408 |
| T115 | 4035-4050 | Disease | denotes | viral infection | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T116 | 4041-4050 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T117 | 4196-4212 | Disease | denotes | immunodeficiency | http://purl.obolibrary.org/obo/MONDO_0021094 |
| T118 | 4297-4306 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T119 | 4359-4363 | Disease | denotes | STAR | http://purl.obolibrary.org/obo/MONDO_0010408 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T10086 | 129-134 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T55331 | 198-206 | http://purl.obolibrary.org/obo/CLO_0009985 | denotes | focusing |
| T72104 | 214-236 | http://purl.obolibrary.org/obo/UBERON_0005409 | denotes | gastrointestinal tract |
| T97568 | 324-325 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T51147 | 461-466 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T5105 | 481-496 | http://purl.obolibrary.org/obo/UBERON_0002108 | denotes | small intestine |
| T2613 | 521-526 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T4923 | 528-535 | http://purl.obolibrary.org/obo/UBERON_0002115 | denotes | jejunum |
| T30379 | 545-546 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T41723 | 566-571 | http://purl.obolibrary.org/obo/UBERON_0002107 | denotes | liver |
| T20653 | 566-571 | http://www.ebi.ac.uk/efo/EFO_0000887 | denotes | liver |
| T29918 | 576-581 | http://purl.obolibrary.org/obo/UBERON_0001155 | denotes | colon |
| T92672 | 592-593 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T61388 | 733-737 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T7524 | 788-798 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T27179 | 840-845 | http://purl.obolibrary.org/obo/UBERON_0000955 | denotes | brain |
| T44598 | 840-845 | http://www.ebi.ac.uk/efo/EFO_0000302 | denotes | brain |
| T26240 | 858-863 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T31821 | 886-891 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T55806 | 969-974 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T32465 | 986-991 | http://purl.obolibrary.org/obo/CLO_0053413 | denotes | APOA1 |
| T49683 | 1032-1033 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T77079 | 1051-1055 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T56636 | 1149-1159 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T29622 | 1187-1188 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T82215 | 1301-1306 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | Human |
| T79577 | 1365-1366 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T96224 | 1430-1437 | http://purl.obolibrary.org/obo/NCBITaxon_33208 | denotes | animals |
| T79165 | 1446-1451 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T49339 | 1455-1456 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T5444 | 1501-1506 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T90354 | 1599-1609 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell types |
| T3127 | 1659-1660 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T26472 | 1686-1691 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T41402 | 1703-1712 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T36878 | 1741-1746 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T60007 | 1756-1765 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T99344 | 1822-1827 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T99491 | 1835-1844 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T92112 | 1856-1857 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T35220 | 1864-1868 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T27389 | 1976-1981 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T79099 | 2004-2013 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes are |
| T34518 | 2056-2065 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T87460 | 2107-2112 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T33200 | 2157-2162 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T43556 | 2169-2174 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T27231 | 2262-2263 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T89581 | 2284-2294 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T75367 | 2295-2300 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T90062 | 2367-2369 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
| T4607 | 2367-2369 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
| T63846 | 2429-2434 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T89144 | 2444-2453 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T50844 | 2510-2515 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T19433 | 2523-2532 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T4611 | 2544-2545 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T73247 | 2552-2556 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T10628 | 2664-2669 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T91525 | 2692-2701 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes are |
| T52009 | 2720-2722 | http://purl.obolibrary.org/obo/CLO_0008933 | denotes | S5 |
| T90210 | 2744-2753 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T48924 | 2795-2800 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T29577 | 2863-2873 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T88295 | 2887-2892 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T56823 | 2917-2919 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
| T15209 | 2917-2919 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
| T97974 | 2938-2940 | http://purl.obolibrary.org/obo/CLO_0008933 | denotes | S5 |
| T20186 | 2979-2982 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T57465 | 3056-3061 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | tests |
| T93198 | 3158-3163 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T83396 | 3167-3168 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T43873 | 3169-3174 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T28803 | 3234-3236 | http://purl.obolibrary.org/obo/CLO_0050510 | denotes | 18 |
| T19355 | 3288-3289 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T1700 | 3316-3321 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T95432 | 3447-3449 | http://purl.obolibrary.org/obo/CLO_0008933 | denotes | S5 |
| T83039 | 3493-3494 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T51135 | 3507-3512 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T52141 | 3527-3537 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T53994 | 3538-3543 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T85302 | 3566-3571 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T30460 | 3581-3583 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
| T9138 | 3581-3583 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
| T1331 | 3584-3585 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T72210 | 3629-3636 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | testing |
| T20348 | 3672-3677 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T58863 | 3820-3828 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activity |
| T12453 | 3890-3895 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T26941 | 3908-3913 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T82818 | 3937-3939 | http://purl.obolibrary.org/obo/CLO_0008933 | denotes | S5 |
| T65896 | 3985-3990 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T33034 | 4071-4081 | http://purl.obolibrary.org/obo/UBERON_0000160 | denotes | intestinal |
| T65650 | 4071-4081 | http://www.ebi.ac.uk/efo/EFO_0000834 | denotes | intestinal |
| T52849 | 4190-4195 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T24962 | 4213-4218 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T6117 | 4286-4292 | http://purl.obolibrary.org/obo/NCBITaxon_33208 | denotes | animal |
| T57895 | 4352-4356 | http://purl.obolibrary.org/obo/CLO_0001185 | denotes | 2018 |
| T63260 | 4484-4491 | http://purl.obolibrary.org/obo/NCBITaxon_33208 | denotes | animals |
| T21836 | 4686-4688 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
| T95974 | 4686-4688 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
| T63745 | 4689-4694 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | Human |
| T54544 | 4703-4708 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | Ileum |
| T32257 | 4731-4732 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T13453 | 4763-4768 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T98229 | 4792-4797 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T85540 | 4798-4803 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T33298 | 4811-4812 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T98131 | 4863-4868 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T94550 | 5034-5044 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T88352 | 5045-5050 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T25360 | 5053-5054 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T50898 | 5094-5104 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T57631 | 5105-5109 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T33621 | 5154-5159 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T56038 | 5163-5167 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T38142 | 5207-5212 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T7647 | 5230-5235 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T40176 | 5350-5355 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T53351 | 5449-5456 | http://purl.obolibrary.org/obo/NCBITaxon_33208 | denotes | animals |
| T18464 | 5507-5511 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T46734 | 5526-5531 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T89430 | 5552-5557 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T84 | 993-995 | Chemical | denotes | SI | http://purl.obolibrary.org/obo/CHEBI_90326 |
| T85 | 1134-1136 | Chemical | denotes | S4 | http://purl.obolibrary.org/obo/CHEBI_29401 |
| T86 | 1259-1261 | Chemical | denotes | S4 | http://purl.obolibrary.org/obo/CHEBI_29401 |
| T87 | 1336-1338 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T88 | 2032-2034 | Chemical | denotes | S4 | http://purl.obolibrary.org/obo/CHEBI_29401 |
| T89 | 2367-2369 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
| T90 | 2720-2722 | Chemical | denotes | S5 | http://purl.obolibrary.org/obo/CHEBI_29386 |
| T91 | 2917-2919 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
| T92 | 2931-2933 | Chemical | denotes | S4 | http://purl.obolibrary.org/obo/CHEBI_29401 |
| T93 | 2938-2940 | Chemical | denotes | S5 | http://purl.obolibrary.org/obo/CHEBI_29386 |
| T94 | 3447-3449 | Chemical | denotes | S5 | http://purl.obolibrary.org/obo/CHEBI_29386 |
| T95 | 3581-3583 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
| T96 | 3937-3939 | Chemical | denotes | S5 | http://purl.obolibrary.org/obo/CHEBI_29386 |
| T97 | 4686-4688 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
| T98 | 5057-5059 | Chemical | denotes | Co | http://purl.obolibrary.org/obo/CHEBI_27638 |
| T99 | 5328-5338 | Chemical | denotes | interferon | http://purl.obolibrary.org/obo/CHEBI_52999 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T36447 | 277-291 | http://purl.obolibrary.org/obo/GO_0019076 | denotes | viral shedding |
| T91940 | 3786-3805 | http://purl.obolibrary.org/obo/GO_0008152 | denotes | metabolic processes |
| T24720 | 4035-4050 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | viral infection |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T126 | 0-68 | Sentence | denotes | Ileal Absorptive Enterocytes Express Host Factors Used by SARS-CoV-2 |
| T127 | 69-312 | Sentence | denotes | Next, we examined several other tissues for ACE2-expressing cells on the basis of the location of hallmark symptoms of COVID-19, focusing on the gastrointestinal tract due to reports of clinical symptoms and viral shedding (Xiao et al., 2020). |
| T128 | 313-609 | Sentence | denotes | Leveraging a previously unpublished scRNA-seq atlas of NHP (M. mulatta) tissues collected with Seq-Well v1, we observed that the majority of ACE2 + cells reside in the small intestine, principally within the ileum, jejunum, and, to a lesser extent, the liver and colon (Figure 3 A; STAR Methods). |
| T129 | 610-846 | Sentence | denotes | Critically, we note that, in this experiment, the dissociation method used on each tissue was optimized to preserve immune cell recovery, and therefore under-sampled stromal and epithelial populations, as well as neurons from the brain. |
| T130 | 847-1138 | Sentence | denotes | Within the ileum, we identified ACE2 + cells as absorptive enterocytes on the basis of specific expression of ACE2 within cells defined by APOA1, SI, FABP6, and ENPEP, among others, by a likelihood-ratio test (Figures 3B and 3C) (p < 1E−300, 62% of all absorptive enterocytes; see Table S4). |
| T131 | 1139-1283 | Sentence | denotes | All other epithelial subtypes expressed ACE2 to a lesser extent, and variably co-expressed ACE2 with TMPRSS2 (see Table S4 for full statistics). |
| T132 | 1284-1363 | Sentence | denotes | Figure 3 NHP and Human Ileal Absorptive Enterocytes Co-Express ACE2 and TMPRSS2 |
| T133 | 1364-1453 | Sentence | denotes | (A) Expression ACE2 across diverse tissues in healthy NHPs (n = 3 animals; 52,858 cells). |
| T134 | 1454-1636 | Sentence | denotes | (B) Schematic of protocol for isolation of NHP ileum (n = 5) at necropsy for scRNA-seq using Seq-Well v1, and computational pipeline to identify cell types by using unbiased methods. |
| T135 | 1637-1713 | Sentence | denotes | Shown on the right is a UMAP projection of 4,515 cells colored by cell type. |
| T136 | 1714-1789 | Sentence | denotes | (C) Dot plot of 2 defining genes for each cell type, with ACE2 and TMPRSS2. |
| T137 | 1790-1982 | Sentence | denotes | Dot size represents fraction of cells within cell type expressing a given gene, and color intensity represents binned count-based expression amounts (log(scaled UMI+1)) among expressing cells. |
| T138 | 1983-2035 | Sentence | denotes | All cluster defining genes are provided in Table S4. |
| T139 | 2036-2113 | Sentence | denotes | Red arrow indicates cell type with largest proportion of ACE2+TMPRSS2+ cells. |
| T140 | 2114-2239 | Sentence | denotes | (D) Schematic of protocol for isolation of human ileal cells from endoscopic pinch biopsies in non-inflamed regions (n = 13). |
| T141 | 2240-2400 | Sentence | denotes | Shown on the right is a tSNE plot of 13,689 epithelial cells selected from original dataset generated by 10x 3′ v2 (see Figure S2), colored by cellular subsets. |
| T142 | 2401-2405 | Sentence | denotes | (E). |
| T143 | 2406-2477 | Sentence | denotes | Dot plot of 2 defining genes for each cell type, with ACE2 and TMPRSS2. |
| T144 | 2478-2670 | Sentence | denotes | Dot size represents fraction of cells within cell type expressing a given gene, and color intensity represents binned count-based expression amounts (log(scaled UMI+1)) among expressing cells. |
| T145 | 2671-2723 | Sentence | denotes | All cluster defining genes are provided in Table S5. |
| T146 | 2724-2801 | Sentence | denotes | Red arrow indicates cell type with largest proportion of ACE2+TMPRSS2+ cells. |
| T147 | 2802-2806 | Sentence | denotes | (F). |
| T148 | 2807-2900 | Sentence | denotes | Expression of ACE2 (left) and TMPRSS2 (right) among all epithelial subsets from human donors. |
| T149 | 2901-2941 | Sentence | denotes | See also Figure S2 and Tables S4 and S5. |
| T150 | 2942-3080 | Sentence | denotes | Persistent viral RNA in rectal swabs has been detected in pediatric infection, even after negative nasopharyngeal tests (Xu et al., 2020). |
| T151 | 3081-3465 | Sentence | denotes | In an additional dataset consisting of endoscopic biopsies from the terminal ileum of a human pediatric cohort (n = 13 donors, ranging in age from 10 to 18 years old), collected with 10X 3′ v2, we confirmed a large abundance of ACE2 + cells with selective expression within absorptive enterocytes (29.7% ACE2 +, FDR-adjusted p = 2.46E−100) (Figures 3D and 3E; Table S5; STAR Methods). |
| T152 | 3466-3591 | Sentence | denotes | Furthermore, we identified a subset (888 cells, ∼6.5% of all epithelial cells) that co-express both genes (Figures S2 A–S2C). |
| T153 | 3592-3941 | Sentence | denotes | We performed differential expression testing and GO-term enrichment using these cells relative to matched non-expressers to highlight putative biological functions enriched within them, such as metabolic processes and catalytic activity, and to identify shared phenotypes of ACE2 + TMPRSS2 + ileal cells across both human and NHP cohorts (Table S5). |
| T154 | 3942-4091 | Sentence | denotes | We speculate that viral targeting of these cells, taken from patients without overt clinical viral infection, might help explain intestinal symptoms. |
| T155 | 4092-4373 | Sentence | denotes | Finally, we compared ileal absorptive enterocytes from healthy NHPs and NHPs infected with simian-human immunodeficiency virus (SHIV) and then treated for 6 months with anti-retroviral therapy (animal and infection characteristics published in Colonna et al., 2018) (STAR Methods). |
| T156 | 4374-4678 | Sentence | denotes | We found significant upregulation of ACE2, STAT1, and IFI6 within the absorptive enterocytes of SHIV-infected animals (which maintain chronically elevated amounts of IFNs and ISGs) compared with those of uninfected controls (FDR-adjusted p < 2E-7) (Figure S2D) (Deeks et al., 2017, Utay and Douek, 2016). |
| T157 | 4679-4729 | Sentence | denotes | Figure S2 Human and NHP Ileum, Related to Figure 3 |
| T158 | 4730-4734 | Sentence | denotes | (A). |
| T159 | 4735-4870 | Sentence | denotes | Top: tSNE projection of all cells from healthy pediatric human ileum within a previously-unpublished 10x 3′ v2 dataset (115,569 cells). |
| T160 | 4871-4928 | Sentence | denotes | Black: higher expression of ACE2 (left), TMPRSS2 (right). |
| T161 | 4929-4936 | Sentence | denotes | Bottom: |
| T162 | 4937-5021 | Sentence | denotes | Corresponding violin plots of expression values for ACE2 (left) and TMPRSS2 (right). |
| T163 | 5022-5051 | Sentence | denotes | Solid line: epithelial cells. |
| T164 | 5052-5056 | Sentence | denotes | (B). |
| T165 | 5057-5117 | Sentence | denotes | Co-expression of ACE2 and TMPRSS2 by epithelial cell subset. |
| T166 | 5118-5175 | Sentence | denotes | Number indicates % of ACE2+TMPRSS2+ cells by cell subset. |
| T167 | 5176-5289 | Sentence | denotes | (C). tSNE projection of 13,689 cells as in Figure 3D, cells colored by co-expression of ACE2 and TMPRSS2 (black). |
| T168 | 5290-5294 | Sentence | denotes | (D). |
| T169 | 5295-5465 | Sentence | denotes | Expression of ACE2 and canonical interferon-responsive genes among absorptive enterocytes from Healthy (n = 2) and SHIV-infected, anti-retroviral treated animals (n = 3). |
| T170 | 5466-5521 | Sentence | denotes | Bonferroni-adjusted p-values by Wilcoxon test (healthy: |
| T171 | 5522-5547 | Sentence | denotes | 510 cells, SHIV-infected: |
| T172 | 5548-5559 | Sentence | denotes | 636 cells). |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T11 | 4196-4212 | Phenotype | denotes | immunodeficiency | http://purl.obolibrary.org/obo/HP_0002721 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 618 | 1347-1351 | Gene | denotes | ACE2 | Gene:59272 |
| 619 | 1301-1306 | Species | denotes | Human | Tax:9606 |
| 621 | 1379-1383 | Gene | denotes | ACE2 | Gene:59272 |
| 626 | 1772-1776 | Gene | denotes | ACE2 | Gene:59272 |
| 627 | 1781-1788 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 628 | 2093-2097 | Gene | denotes | ACE2 | Gene:59272 |
| 629 | 2098-2105 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 631 | 2157-2162 | Species | denotes | human | Tax:9606 |
| 636 | 2460-2464 | Gene | denotes | ACE2 | Gene:59272 |
| 637 | 2469-2476 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 638 | 2781-2785 | Gene | denotes | ACE2 | Gene:59272 |
| 639 | 2786-2793 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 643 | 2821-2825 | Gene | denotes | ACE2 | Gene:59272 |
| 644 | 2837-2844 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 645 | 2887-2892 | Species | denotes | human | Tax:9606 |
| 660 | 113-117 | Gene | denotes | ACE2 | Gene:59272 |
| 661 | 454-458 | Gene | denotes | ACE2 | Gene:712790 |
| 662 | 879-883 | Gene | denotes | ACE2 | Gene:712790 |
| 663 | 957-961 | Gene | denotes | ACE2 | Gene:712790 |
| 664 | 986-991 | Gene | denotes | APOA1 | Gene:335 |
| 665 | 997-1002 | Gene | denotes | FABP6 | Gene:2172 |
| 666 | 1008-1013 | Gene | denotes | ENPEP | Gene:2028 |
| 667 | 1179-1183 | Gene | denotes | ACE2 | Gene:712790 |
| 668 | 1230-1234 | Gene | denotes | ACE2 | Gene:712790 |
| 669 | 1240-1247 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 670 | 595-599 | Gene | denotes | STAR | Gene:699515 |
| 671 | 373-383 | Species | denotes | M. mulatta | Tax:9544 |
| 672 | 188-196 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 673 | 610-620 | Disease | denotes | Critically | MESH:D016638 |
| 675 | 4689-4694 | Species | denotes | Human | Tax:9606 |
| 681 | 4899-4903 | Gene | denotes | ACE2 | Gene:59272 |
| 682 | 4912-4919 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 683 | 4989-4993 | Gene | denotes | ACE2 | Gene:59272 |
| 684 | 5005-5012 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 685 | 4792-4797 | Species | denotes | human | Tax:9606 |
| 690 | 5074-5078 | Gene | denotes | ACE2 | Gene:59272 |
| 691 | 5083-5090 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 692 | 5140-5144 | Gene | denotes | ACE2 | Gene:59272 |
| 693 | 5145-5152 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 696 | 5264-5268 | Gene | denotes | ACE2 | Gene:59272 |
| 697 | 5273-5280 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 702 | 5309-5313 | Gene | denotes | ACE2 | Gene:59272 |
| 703 | 5328-5338 | Gene | denotes | interferon | Gene:3439 |
| 704 | 5410-5423 | Disease | denotes | SHIV-infected | MESH:D007239 |
| 705 | 5533-5546 | Disease | denotes | SHIV-infected | MESH:D007239 |
| 725 | 3309-3313 | Gene | denotes | ACE2 | Gene:59272 |
| 726 | 3385-3389 | Gene | denotes | ACE2 | Gene:59272 |
| 727 | 3867-3871 | Gene | denotes | ACE2 | Gene:59272 |
| 728 | 3874-3881 | Gene | denotes | TMPRSS2 | Gene:7113 |
| 729 | 4411-4415 | Gene | denotes | ACE2 | Gene:59272 |
| 730 | 4417-4422 | Gene | denotes | STAT1 | Gene:6772 |
| 731 | 4428-4432 | Gene | denotes | IFI6 | Gene:2537 |
| 732 | 3451-3455 | Gene | denotes | STAR | Gene:6770 |
| 733 | 4359-4363 | Gene | denotes | STAR | Gene:6770 |
| 734 | 3169-3174 | Species | denotes | human | Tax:9606 |
| 735 | 3908-3913 | Species | denotes | human | Tax:9606 |
| 736 | 4003-4011 | Species | denotes | patients | Tax:9606 |
| 737 | 4183-4218 | Species | denotes | simian-human immunodeficiency virus | Tax:57667 |
| 738 | 4220-4224 | Species | denotes | SHIV | Tax:57667 |
| 739 | 3010-3019 | Disease | denotes | infection | MESH:D007239 |
| 740 | 4041-4050 | Disease | denotes | infection | MESH:D007239 |
| 741 | 4155-4177 | Disease | denotes | NHPs and NHPs infected | MESH:D007239 |
| 742 | 4297-4306 | Disease | denotes | infection | MESH:D007239 |
| 743 | 4470-4483 | Disease | denotes | SHIV-infected | MESH:D007239 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32413319-32284613-20790466 | 3074-3078 | 32284613 | denotes | 2020 |
| 32413319-30361514-20790467 | 4352-4356 | 30361514 | denotes | 2018 |
| 32413319-27941242-20790468 | 4650-4654 | 27941242 | denotes | 2017 |
| 32413319-27500281-20790469 | 4672-4676 | 27500281 | denotes | 2016 |