PMC:7352545 / 62180-64185
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T201 | 1371-1382 | https://glytoucan.org/Structures/Glycans/G43702JT | denotes | chondroitin |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T571 | 50-79 | Body_part | denotes | heparan sulfate proteoglycans | http://purl.org/sig/ont/fma/fma82834 |
| T572 | 50-65 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T573 | 81-86 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T574 | 140-145 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T575 | 188-195 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T576 | 221-228 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T577 | 240-244 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T578 | 252-260 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T579 | 323-330 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T580 | 412-419 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T581 | 467-472 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T582 | 486-493 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T583 | 503-507 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T584 | 552-557 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T585 | 586-594 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T586 | 638-643 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T587 | 651-656 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T588 | 661-678 | Body_part | denotes | glycosaminoglycan | http://purl.org/sig/ont/fma/fma63011 |
| T589 | 680-683 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T590 | 694-702 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T591 | 760-765 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T592 | 798-800 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T593 | 813-816 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T594 | 827-829 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T595 | 830-833 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T596 | 919-925 | Body_part | denotes | serine | http://purl.org/sig/ont/fma/fma82764 |
| T597 | 960-962 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T598 | 963-966 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T599 | 1076-1091 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T600 | 1114-1117 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T601 | 1179-1191 | Body_part | denotes | cell surface | http://purl.org/sig/ont/fma/fma67653 |
| T602 | 1179-1183 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T603 | 1243-1249 | Body_part | denotes | sugars | http://purl.org/sig/ont/fma/fma82737 |
| T604 | 1364-1366 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T605 | 1371-1390 | Body_part | denotes | chondroitin sulfate | http://purl.org/sig/ont/fma/fma82837 |
| T606 | 1391-1394 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T607 | 1565-1569 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T608 | 1671-1675 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T609 | 1841-1852 | Body_part | denotes | Merkel cell | http://purl.org/sig/ont/fma/fma70548 |
| T610 | 1848-1852 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T611 | 1881-1886 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T612 | 1898-1903 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T32 | 448-463 | Body_part | denotes | attachment site | http://purl.obolibrary.org/obo/UBERON_4200047 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T245 | 386-395 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T246 | 1606-1616 | Disease | denotes | infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T247 | 1709-1718 | Disease | denotes | papilloma | http://purl.obolibrary.org/obo/MONDO_0002363 |
| T248 | 1745-1756 | Disease | denotes | hepatitis B | http://purl.obolibrary.org/obo/MONDO_0005344 |
| T249 | 1745-1754 | Disease | denotes | hepatitis | http://purl.obolibrary.org/obo/MONDO_0002251 |
| T250 | 1772-1788 | Disease | denotes | Kaposi’s sarcoma | http://purl.obolibrary.org/obo/MONDO_0005055 |
| T251 | 1781-1788 | Disease | denotes | sarcoma | http://purl.obolibrary.org/obo/MONDO_0005089 |
| T252 | 1819-1828 | Disease | denotes | papilloma | http://purl.obolibrary.org/obo/MONDO_0002363 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T889 | 50-79 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | heparan sulfate proteoglycans |
| T890 | 81-86 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T891 | 122-129 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Viruses |
| T892 | 140-145 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T893 | 344-345 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T894 | 403-411 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
| T895 | 467-472 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T896 | 538-543 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T897 | 552-557 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T898 | 609-614 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T899 | 638-643 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T900 | 651-656 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T901 | 722-723 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T902 | 760-765 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T903 | 811-812 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T904 | 1147-1152 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T905 | 1179-1183 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T906 | 1600-1605 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T907 | 1656-1661 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T908 | 1663-1668 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T909 | 1669-1675 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T cell |
| T910 | 1689-1694 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T911 | 1703-1708 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T912 | 1719-1724 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T913 | 1736-1743 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T914 | 1755-1756 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T915 | 1763-1770 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T916 | 1813-1818 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T917 | 1829-1836 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T918 | 1848-1852 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T919 | 1861-1866 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T920 | 1881-1886 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T921 | 1898-1903 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T243 | 50-65 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T244 | 50-57 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T245 | 58-65 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T246 | 66-79 | Chemical | denotes | proteoglycans | http://purl.obolibrary.org/obo/CHEBI_37396 |
| T63863 | 160-169 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T35583 | 188-195 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T77933 | 221-228 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T34988 | 252-260 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T251 | 323-330 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T91387 | 412-419 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T253 | 486-493 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T254 | 586-594 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T255 | 661-678 | Chemical | denotes | glycosaminoglycan | http://purl.obolibrary.org/obo/CHEBI_18085 |
| T256 | 680-683 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T79623 | 694-702 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T71826 | 798-800 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T18567 | 813-816 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T80092 | 827-829 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T27911 | 830-833 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T57873 | 855-870 | Chemical | denotes | tetrasaccharide | http://purl.obolibrary.org/obo/CHEBI_50126 |
| T87972 | 888-894 | Chemical | denotes | GlcNAc | http://purl.obolibrary.org/obo/CHEBI_506227|http://purl.obolibrary.org/obo/CHEBI_73685 |
| T80138 | 898-901 | Chemical | denotes | Gal | http://purl.obolibrary.org/obo/CHEBI_28260 |
| T73878 | 905-908 | Chemical | denotes | Gal | http://purl.obolibrary.org/obo/CHEBI_28260 |
| T54412 | 912-915 | Chemical | denotes | Xyl | http://purl.obolibrary.org/obo/CHEBI_18222 |
| T32519 | 919-925 | Chemical | denotes | serine | http://purl.obolibrary.org/obo/CHEBI_17822 |
| T84324 | 960-962 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T33895 | 963-966 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T68117 | 991-993 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T13587 | 1032-1034 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T20790 | 1068-1070 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T74944 | 1076-1091 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T12927 | 1076-1083 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T280 | 1084-1091 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T24928 | 1114-1117 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T88817 | 1364-1366 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T284 | 1371-1390 | Chemical | denotes | chondroitin sulfate | http://purl.obolibrary.org/obo/CHEBI_37397 |
| T285 | 1383-1390 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T5029 | 1391-1394 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T13455 | 1512-1519 | Chemical | denotes | ligands | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T289 | 1575-1582 | Chemical | denotes | ligands | http://purl.obolibrary.org/obo/CHEBI_52214 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T102 | 967-976 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | synthesis |
| T103 | 1092-1101 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | synthesis |
| T104 | 1153-1178 | http://purl.obolibrary.org/obo/GO_0051701 | denotes | interaction with the host |
| T105 | 1322-1335 | http://purl.obolibrary.org/obo/GO_0009653 | denotes | morphogenesis |
| T106 | 1347-1360 | http://purl.obolibrary.org/obo/GO_0009653 | denotes | morphogenesis |
| T107 | 1913-1922 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | virulence |
| T108 | 1913-1922 | http://purl.obolibrary.org/obo/GO_0009405 | denotes | virulence |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T599 | 0-121 | Sentence | denotes | For glycan interaction, HCoV-NL63 and MHV utilize heparan sulfate proteoglycans (HSPGs) as attachment enhancers [87,124]. |
| T600 | 122-170 | Sentence | denotes | Viruses recognize HSPGs as attachment molecules. |
| T601 | 171-245 | Sentence | denotes | In the spike (S) protein-deficient virions, the M protein recognizes HSPG. |
| T602 | 246-307 | Sentence | denotes | The S proteins generally bind to the viral cellular receptor. |
| T603 | 308-396 | Sentence | denotes | However, the M protein also acts as a receptor in the early step of HCoV-NL63 infection. |
| T604 | 397-473 | Sentence | denotes | The M membrane protein of HCoV-NL63 recognizes the attachment site of HSPGs. |
| T605 | 474-650 | Sentence | denotes | HCoV-NL63 M protein binds to HSPG for the initial attachment of virus to host cells and thereafter, the M and S proteins cooperate for virus entrance into the host cells [125]. |
| T606 | 651-759 | Sentence | denotes | HSPGs are glycosaminoglycan (GAG)-carrying proteins frequently used as a secondary receptor for viral entry. |
| T607 | 760-822 | Sentence | denotes | HSPGs are composed of covalent-bonded HS chains as a GAG form. |
| T608 | 823-926 | Sentence | denotes | The HS GAG linkage structure of tetrasaccharide exhibits GluAβ1,3GlcNAcα1,4Galβ1,3Galβ1,4Xylβ-O-serine. |
| T609 | 927-1113 | Sentence | denotes | Glycosyltransferases involved in HS GAG synthesis include GlcAT-II (glucuronosyltransferase) and GlcNAcT-II (N-acetylglucosaminyltransferase II) for heparan sulfate synthesis (Figure 9). |
| T610 | 1114-1192 | Sentence | denotes | GAG is used as docking sites for virus interaction with the host cell surface. |
| T611 | 1193-1256 | Sentence | denotes | GAGs contain negatively charged N- and O-sulfated sugars [126]. |
| T612 | 1257-1448 | Sentence | denotes | The biosynthetic pathway and biologic roles in early embryogenic morphogenesis and vulval morphogenesis of HS and chondroitin sulfate GAG have been elucidated in Caenorhabditis elegans [127]. |
| T613 | 1449-1549 | Sentence | denotes | The negative charges mediate the interaction of GAGs and their ligands through electrostatic forces. |
| T614 | 1550-1624 | Sentence | denotes | Interaction of HSPG with ligands potentiates many virus infectious cycles. |
| T615 | 1625-1897 | Sentence | denotes | For examples, adeno-associated virus, human T cell lymphotropic virus type 1, human papilloma virus 16, herpes viruses, hepatitis B and C viruses, Kaposi’s sarcoma-associated herpesvirus, human papilloma viruses and Merkel cell polyoma virus recognize the HSPGs [128,129]. |
| T616 | 1898-2005 | Sentence | denotes | HSPGs increase virulence upon interaction with viral factors required for viral attachment and replication. |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T7 | 50-65 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T8 | 798-800 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T9 | 827-829 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T10 | 960-962 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T11 | 1076-1091 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T12 | 1364-1366 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T13 | 1371-1382 | GlycoEpitope | denotes | chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32604730-25187545-51944087 | 113-115 | 25187545 | denotes | 87 |
| 32604730-17692355-51944088 | 116-119 | 17692355 | denotes | 124 |
| 32604730-31315999-51944089 | 645-648 | 31315999 | denotes | 125 |
| 32604730-12369092-51944090 | 1251-1254 | 12369092 | denotes | 126 |
| 32604730-12761549-51944091 | 1443-1446 | 12761549 | denotes | 127 |
| 32604730-11507222-51944092 | 1888-1891 | 11507222 | denotes | 128 |
| 32604730-11518721-51944093 | 1892-1895 | 11518721 | denotes | 129 |
| T42843 | 113-115 | 25187545 | denotes | 87 |
| T53854 | 116-119 | 17692355 | denotes | 124 |
| T94580 | 645-648 | 31315999 | denotes | 125 |
| T83893 | 1251-1254 | 12369092 | denotes | 126 |
| T73934 | 1443-1446 | 12761549 | denotes | 127 |
| T91960 | 1888-1891 | 11507222 | denotes | 128 |
| T65288 | 1892-1895 | 11518721 | denotes | 129 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T20 | 1709-1718 | Phenotype | denotes | papilloma | http://purl.obolibrary.org/obo/HP_0012740 |
| T21 | 1745-1754 | Phenotype | denotes | hepatitis | http://purl.obolibrary.org/obo/HP_0012115 |
| T22 | 1772-1788 | Phenotype | denotes | Kaposi’s sarcoma | http://purl.obolibrary.org/obo/HP_0100726 |
| T23 | 1819-1828 | Phenotype | denotes | papilloma | http://purl.obolibrary.org/obo/HP_0012740 |