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PMC:7352545 / 55060-57846 JSONTXT

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LitCovid_Glycan-Motif-Structure

Id Subject Object Predicate Lexical cue
T193 765-774 https://glytoucan.org/Structures/Glycans/G65889KE denotes galactose
T194 765-774 https://glytoucan.org/Structures/Glycans/G68158BT denotes galactose
T195 1552-1554 https://glytoucan.org/Structures/Glycans/G81533KY denotes SA

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T476 37-42 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T477 62-75 Body_part denotes glycoproteins http://purl.org/sig/ont/fma/fma62925
T478 110-117 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T479 159-171 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T480 280-284 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T481 372-377 Body_part denotes lipid http://purl.org/sig/ont/fma/fma67264
T482 420-427 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T483 561-566 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T484 574-578 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T485 765-774 Body_part denotes galactose http://purl.org/sig/ont/fma/fma82794
T486 853-858 Body_part denotes sugar http://purl.org/sig/ont/fma/fma82737
T487 886-890 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T488 900-907 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T489 909-912 Body_part denotes CAM http://purl.org/sig/ont/fma/fma67214
T490 922-926 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T491 1079-1083 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T492 1107-1119 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T493 1120-1124 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T494 1140-1147 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T495 1172-1176 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T496 1208-1213 Body_part denotes sugar http://purl.org/sig/ont/fma/fma82737
T497 1250-1257 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T498 1563-1571 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T499 1629-1634 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T500 1693-1706 Body_part denotes cell membrane http://purl.org/sig/ont/fma/fma63841
T501 1693-1697 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T502 1872-1880 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T503 1986-1998 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T504 2130-2136 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637
T505 2305-2318 Body_part denotes glycoproteins http://purl.org/sig/ont/fma/fma62925
T506 2368-2380 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T507 2570-2578 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T508 2667-2672 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T28 2130-2136 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T221 593-596 Disease denotes NTD http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075
T223 719-722 Disease denotes NTD http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075
T225 805-808 Disease denotes NTD http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075
T227 843-846 Disease denotes NTD http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075
T229 1505-1515 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T230 2224-2233 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T776 37-42 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T777 127-135 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T778 184-186 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T779 196-201 http://purl.obolibrary.org/obo/UBERON_0000033 denotes heads
T780 196-201 http://www.ebi.ac.uk/efo/EFO_0000964 denotes heads
T781 213-215 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T782 216-221 http://purl.obolibrary.org/obo/UBERON_0000033 denotes heads
T783 216-221 http://www.ebi.ac.uk/efo/EFO_0000964 denotes heads
T784 229-234 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T785 280-284 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T786 324-332 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T787 474-482 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T788 561-566 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T789 574-578 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T790 600-602 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T791 690-695 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T792 716-718 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T793 723-726 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T794 727-728 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T795 759-764 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T796 802-804 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T797 840-842 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T798 884-890 http://purl.obolibrary.org/obo/CLO_0001020 denotes a cell
T799 1079-1083 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T800 1104-1106 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T801 1120-1124 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T802 1137-1139 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T803 1172-1176 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T804 1247-1249 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T805 1315-1323 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T806 1325-1328 http://purl.obolibrary.org/obo/CLO_0054060 denotes 102
T807 1602-1610 http://purl.obolibrary.org/obo/CLO_0001658 denotes activate
T808 1629-1634 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T809 1687-1692 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T810 1693-1697 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T811 1698-1706 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T812 2038-2046 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T813 2390-2398 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T814 2463-2465 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T815 2497-2499 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T816 2500-2502 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T817 2500-2502 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T818 2535-2537 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T819 2613-2621 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T820 2655-2662 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T821 2667-2672 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T822 2695-2703 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T823 2711-2713 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T824 2711-2713 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T825 2738-2747 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T826 2752-2760 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T125 62-75 Chemical denotes glycoproteins http://purl.obolibrary.org/obo/CHEBI_17089
T81226 110-117 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T99806 159-171 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T128 258-267 Chemical denotes molecules http://purl.obolibrary.org/obo/CHEBI_25367
T86776 286-297 Chemical denotes Cholesterol http://purl.obolibrary.org/obo/CHEBI_16113
T46368 372-377 Chemical denotes lipid http://purl.obolibrary.org/obo/CHEBI_18059
T37044 420-427 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T11862 540-551 Chemical denotes cholesterol http://purl.obolibrary.org/obo/CHEBI_16113
T50236 765-774 Chemical denotes galactose http://purl.obolibrary.org/obo/CHEBI_28260
T134 900-907 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T39590 962-964 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507
T136 1107-1119 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T137 1140-1147 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T138 1250-1257 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T139 1552-1554 Chemical denotes SA http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667
T144 1563-1571 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T145 1810-1813 Chemical denotes GPI http://purl.obolibrary.org/obo/CHEBI_36315|http://purl.obolibrary.org/obo/CHEBI_59682
T147 1872-1880 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T13373 1912-1915 Chemical denotes GPI http://purl.obolibrary.org/obo/CHEBI_36315|http://purl.obolibrary.org/obo/CHEBI_59682
T78904 1921-1923 Chemical denotes TM http://purl.obolibrary.org/obo/CHEBI_55460|http://purl.obolibrary.org/obo/CHEBI_74861
T82009 1986-1998 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T45392 2176-2179 Chemical denotes GPI http://purl.obolibrary.org/obo/CHEBI_36315|http://purl.obolibrary.org/obo/CHEBI_59682
T53957 2239-2241 Chemical denotes TM http://purl.obolibrary.org/obo/CHEBI_55460|http://purl.obolibrary.org/obo/CHEBI_74861
T23174 2305-2318 Chemical denotes glycoproteins http://purl.obolibrary.org/obo/CHEBI_17089
T158 2368-2380 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T8007 2500-2502 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T4434 2570-2578 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T8852 2695-2703 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T69566 2711-2713 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T87 127-142 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusion
T88 324-339 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusion
T89 474-489 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusion
T90 886-899 http://purl.obolibrary.org/obo/GO_0007155 denotes cell adhesion
T91 1615-1628 http://purl.obolibrary.org/obo/GO_0045087 denotes innate immune
T92 1698-1713 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusion
T93 1721-1730 http://purl.obolibrary.org/obo/GO_0009058 denotes Formation
T94 2390-2406 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusions
T95 2613-2628 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane fusion

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T532 0-6 Sentence denotes 6.3.3.
T533 7-22 Sentence denotes CEACAM Receptor
T534 23-143 Sentence denotes Entry of host cells needs binding of S glycoproteins to the CEACAM receptor, forming S-protein-mediated membrane fusion.
T535 144-202 Sentence denotes The trimeric S glycoprotein bears three S1 receptor heads.
T536 203-285 Sentence denotes The three S1 heads of the virus bind to three receptor molecules on the host cell.
T537 286-495 Sentence denotes Cholesterol is indirectly involved in membrane fusion through CEACAM engagement into “lipid raft” microdomains, increasing multiple S protein interaction with the receptors and triggering membrane fusion [97].
T538 496-588 Sentence denotes The enveloped CoV, MHV, binds to CEACAMs on cholesterol-depleted cells in BHK cell cultures.
T539 589-622 Sentence denotes The NTD of S1 recognizes CEACAM1.
T540 623-707 Sentence denotes For MERS-CoV, another CEACAM5 isoform is the attachment factor for virus entry [75].
T541 708-797 Sentence denotes The CoV S1 NTD has a similar tertiary structure to human galactose-recognizing galectins.
T542 798-871 Sentence denotes MHV S1 NTD binds murine CEACAM1a and BCoV S1 NTD binds sugar [98,99,100].
T543 872-952 Sentence denotes CEACAM1a is a cell adhesion protein (CAM) and its mRNA is alternatively spliced.
T544 953-1029 Sentence denotes The cryo-EM structure of MHV S complexed with CEACAM1a was elucidated [101].
T545 1030-1242 Sentence denotes Thus, HCoVs evolutionarily combined the galectin gene of hosts into their S1 glycoprotein gene, while BCoV S1 protein is present without such gene recombination but contains the sugar-recognizing lectin capacity.
T546 1243-1330 Sentence denotes MHV S1 protein also evolutionarily acquired murine CEACAM1a-recognizing activity [102].
T547 1331-1447 Sentence denotes Therefore, CoVs are under evolution to adapt their host receptor interaction to infect cross-species hosts [80,103].
T548 1448-1635 Sentence denotes On the host side, to escape the lethal pressure from CoV infections, hosts have also evolved to acquire SA-binding proteins such as siglecs to inhibit or activate the innate immune cells.
T549 1636-1720 Sentence denotes Both raft and non-raft CEACAMs are involved in the virus–cell membrane fusion event.
T550 1721-1881 Sentence denotes Formation of CEACAM-associated MHV particles or CEACAM-induced MHV fusion is possible by GPI-anchored CEACAMs through the binding between CEACAM and S proteins.
T551 1882-2019 Sentence denotes However, MHV can bind to both GPI- and TM-anchored CEACAMs. In addition, soluble CEACAMs also mediate S glycoprotein-driven fusion [104].
T552 2020-2087 Sentence denotes This implies that membrane anchors are not intrinsically necessary.
T553 2088-2161 Sentence denotes In fact, CEACAMs are present in different tissue-specific isoforms [105].
T554 2162-2413 Sentence denotes Nevertheless, GPI-anchored CEACAMs are more effective for MHV infection than TM-anchored CEACAMs. Soluble CEACAM receptors can bind to viral S glycoproteins and induce conformational shifts to acceptable S glycoprotein-involved membrane fusions [106].
T555 2414-2567 Sentence denotes For example, soluble CEACAM forms interacts with S1 fragments [107] and alters the S1–S2 association stability [108] and S1 oxidation confirmation [109].
T556 2568-2629 Sentence denotes S proteins are structurally shifted prior to membrane fusion.
T557 2630-2786 Sentence denotes For the cross-linking of viruses and cells, integral hydrophobic peptides of the S2 chain are embedded into membranes via membrane hydrophobic cholesterols.

2_test

Id Subject Object Predicate Lexical cue
32604730-14990688-51944062 491-493 14990688 denotes 97
32604730-28923942-51944063 703-705 28923942 denotes 75
32604730-21670291-51944064 860-862 21670291 denotes 98
32604730-26855426-51944065 863-865 26855426 denotes 99
32604730-32150576-51944066 1024-1027 32150576 denotes 101
32604730-27578435-51944067 1442-1445 27578435 denotes 103
32604730-11773370-51944068 2014-2017 11773370 denotes 104
32604730-11994468-51944069 2156-2159 11994468 denotes 105
32604730-12414924-51944070 2408-2411 12414924 denotes 106
32604730-7520090-51944071 2477-2480 7520090 denotes 107
32604730-11222703-51944072 2526-2529 11222703 denotes 108
T11901 491-493 14990688 denotes 97
T94239 703-705 28923942 denotes 75
T60974 860-862 21670291 denotes 98
T40239 863-865 26855426 denotes 99
T95315 1024-1027 32150576 denotes 101
T82445 1442-1445 27578435 denotes 103
T65492 2014-2017 11773370 denotes 104
T46798 2156-2159 11994468 denotes 105
T91956 2408-2411 12414924 denotes 106
T88769 2477-2480 7520090 denotes 107
T88164 2526-2529 11222703 denotes 108