PMC:7352545 / 62119-64185
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T201 | 1432-1443 | https://glytoucan.org/Structures/Glycans/G43702JT | denotes | chondroitin |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T568 | 7-22 | Body_part | denotes | Heparan Sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T569 | 7-14 | Body_part | denotes | Heparan | http://purl.org/sig/ont/fma/fma67110 |
| T570 | 24-26 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T571 | 111-140 | Body_part | denotes | heparan sulfate proteoglycans | http://purl.org/sig/ont/fma/fma82834 |
| T572 | 111-126 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T573 | 142-147 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T574 | 201-206 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T575 | 249-256 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T576 | 282-289 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T577 | 301-305 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T578 | 313-321 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T579 | 384-391 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T580 | 473-480 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T581 | 528-533 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T582 | 547-554 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T583 | 564-568 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T584 | 613-618 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T585 | 647-655 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T586 | 699-704 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T587 | 712-717 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T588 | 722-739 | Body_part | denotes | glycosaminoglycan | http://purl.org/sig/ont/fma/fma63011 |
| T589 | 741-744 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T590 | 755-763 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T591 | 821-826 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T592 | 859-861 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T593 | 874-877 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T594 | 888-890 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T595 | 891-894 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T596 | 980-986 | Body_part | denotes | serine | http://purl.org/sig/ont/fma/fma82764 |
| T597 | 1021-1023 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T598 | 1024-1027 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T599 | 1137-1152 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T600 | 1175-1178 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T601 | 1240-1252 | Body_part | denotes | cell surface | http://purl.org/sig/ont/fma/fma67653 |
| T602 | 1240-1244 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T603 | 1304-1310 | Body_part | denotes | sugars | http://purl.org/sig/ont/fma/fma82737 |
| T604 | 1425-1427 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T605 | 1432-1451 | Body_part | denotes | chondroitin sulfate | http://purl.org/sig/ont/fma/fma82837 |
| T606 | 1452-1455 | Body_part | denotes | GAG | http://purl.org/sig/ont/fma/fma63011 |
| T607 | 1626-1630 | Body_part | denotes | HSPG | http://purl.org/sig/ont/fma/fma82834 |
| T608 | 1732-1736 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T609 | 1902-1913 | Body_part | denotes | Merkel cell | http://purl.org/sig/ont/fma/fma70548 |
| T610 | 1909-1913 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T611 | 1942-1947 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
| T612 | 1959-1964 | Body_part | denotes | HSPGs | http://purl.org/sig/ont/fma/fma82834 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T31 | 45-60 | Body_part | denotes | Attachment Site | http://purl.obolibrary.org/obo/UBERON_4200047 |
| T32 | 509-524 | Body_part | denotes | attachment site | http://purl.obolibrary.org/obo/UBERON_4200047 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T245 | 447-456 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T246 | 1667-1677 | Disease | denotes | infectious | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T247 | 1770-1779 | Disease | denotes | papilloma | http://purl.obolibrary.org/obo/MONDO_0002363 |
| T248 | 1806-1817 | Disease | denotes | hepatitis B | http://purl.obolibrary.org/obo/MONDO_0005344 |
| T249 | 1806-1815 | Disease | denotes | hepatitis | http://purl.obolibrary.org/obo/MONDO_0002251 |
| T250 | 1833-1849 | Disease | denotes | Kaposi’s sarcoma | http://purl.obolibrary.org/obo/MONDO_0005055 |
| T251 | 1842-1849 | Disease | denotes | sarcoma | http://purl.obolibrary.org/obo/MONDO_0005089 |
| T252 | 1880-1889 | Disease | denotes | papilloma | http://purl.obolibrary.org/obo/MONDO_0002363 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T889 | 111-140 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | heparan sulfate proteoglycans |
| T890 | 142-147 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T891 | 183-190 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | Viruses |
| T892 | 201-206 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T893 | 405-406 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T894 | 464-472 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
| T895 | 528-533 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T896 | 599-604 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T897 | 613-618 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T898 | 670-675 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T899 | 699-704 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T900 | 712-717 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T901 | 783-784 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T902 | 821-826 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T903 | 872-873 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T904 | 1208-1213 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T905 | 1240-1244 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T906 | 1661-1666 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T907 | 1717-1722 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T908 | 1724-1729 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T909 | 1730-1736 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T cell |
| T910 | 1750-1755 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T911 | 1764-1769 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T912 | 1780-1785 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T913 | 1797-1804 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T914 | 1816-1817 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T915 | 1824-1831 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T916 | 1874-1879 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T917 | 1890-1897 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T918 | 1909-1913 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T919 | 1922-1927 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T920 | 1942-1947 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
| T921 | 1959-1964 | http://purl.obolibrary.org/obo/PR_000001307 | denotes | HSPGs |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T241 | 15-22 | Chemical | denotes | Sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T12264 | 24-26 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T243 | 111-126 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T244 | 111-118 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T245 | 119-126 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T246 | 127-140 | Chemical | denotes | proteoglycans | http://purl.obolibrary.org/obo/CHEBI_37396 |
| T63863 | 221-230 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T35583 | 249-256 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T77933 | 282-289 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T34988 | 313-321 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T251 | 384-391 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T91387 | 473-480 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T253 | 547-554 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T254 | 647-655 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T255 | 722-739 | Chemical | denotes | glycosaminoglycan | http://purl.obolibrary.org/obo/CHEBI_18085 |
| T256 | 741-744 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T79623 | 755-763 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T71826 | 859-861 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T18567 | 874-877 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T80092 | 888-890 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T27911 | 891-894 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T57873 | 916-931 | Chemical | denotes | tetrasaccharide | http://purl.obolibrary.org/obo/CHEBI_50126 |
| T87972 | 949-955 | Chemical | denotes | GlcNAc | http://purl.obolibrary.org/obo/CHEBI_506227|http://purl.obolibrary.org/obo/CHEBI_73685 |
| T80138 | 959-962 | Chemical | denotes | Gal | http://purl.obolibrary.org/obo/CHEBI_28260 |
| T73878 | 966-969 | Chemical | denotes | Gal | http://purl.obolibrary.org/obo/CHEBI_28260 |
| T54412 | 973-976 | Chemical | denotes | Xyl | http://purl.obolibrary.org/obo/CHEBI_18222 |
| T32519 | 980-986 | Chemical | denotes | serine | http://purl.obolibrary.org/obo/CHEBI_17822 |
| T84324 | 1021-1023 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T33895 | 1024-1027 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T68117 | 1052-1054 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T13587 | 1093-1095 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T20790 | 1129-1131 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T74944 | 1137-1152 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T12927 | 1137-1144 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T280 | 1145-1152 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T24928 | 1175-1178 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T88817 | 1425-1427 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056 |
| T284 | 1432-1451 | Chemical | denotes | chondroitin sulfate | http://purl.obolibrary.org/obo/CHEBI_37397 |
| T285 | 1444-1451 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T5029 | 1452-1455 | Chemical | denotes | GAG | http://purl.obolibrary.org/obo/CHEBI_143889|http://purl.obolibrary.org/obo/CHEBI_18085 |
| T13455 | 1573-1580 | Chemical | denotes | ligands | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T289 | 1636-1643 | Chemical | denotes | ligands | http://purl.obolibrary.org/obo/CHEBI_52214 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T102 | 1028-1037 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | synthesis |
| T103 | 1153-1162 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | synthesis |
| T104 | 1214-1239 | http://purl.obolibrary.org/obo/GO_0051701 | denotes | interaction with the host |
| T105 | 1383-1396 | http://purl.obolibrary.org/obo/GO_0009653 | denotes | morphogenesis |
| T106 | 1408-1421 | http://purl.obolibrary.org/obo/GO_0009653 | denotes | morphogenesis |
| T107 | 1974-1983 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | virulence |
| T108 | 1974-1983 | http://purl.obolibrary.org/obo/GO_0009405 | denotes | virulence |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T597 | 0-6 | Sentence | denotes | 6.3.6. |
| T598 | 7-60 | Sentence | denotes | Heparan Sulfate (HS) is the HCoV-NL63 Attachment Site |
| T599 | 61-182 | Sentence | denotes | For glycan interaction, HCoV-NL63 and MHV utilize heparan sulfate proteoglycans (HSPGs) as attachment enhancers [87,124]. |
| T600 | 183-231 | Sentence | denotes | Viruses recognize HSPGs as attachment molecules. |
| T601 | 232-306 | Sentence | denotes | In the spike (S) protein-deficient virions, the M protein recognizes HSPG. |
| T602 | 307-368 | Sentence | denotes | The S proteins generally bind to the viral cellular receptor. |
| T603 | 369-457 | Sentence | denotes | However, the M protein also acts as a receptor in the early step of HCoV-NL63 infection. |
| T604 | 458-534 | Sentence | denotes | The M membrane protein of HCoV-NL63 recognizes the attachment site of HSPGs. |
| T605 | 535-711 | 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 | 712-820 | Sentence | denotes | HSPGs are glycosaminoglycan (GAG)-carrying proteins frequently used as a secondary receptor for viral entry. |
| T607 | 821-883 | Sentence | denotes | HSPGs are composed of covalent-bonded HS chains as a GAG form. |
| T608 | 884-987 | Sentence | denotes | The HS GAG linkage structure of tetrasaccharide exhibits GluAβ1,3GlcNAcα1,4Galβ1,3Galβ1,4Xylβ-O-serine. |
| T609 | 988-1174 | 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 | 1175-1253 | Sentence | denotes | GAG is used as docking sites for virus interaction with the host cell surface. |
| T611 | 1254-1317 | Sentence | denotes | GAGs contain negatively charged N- and O-sulfated sugars [126]. |
| T612 | 1318-1509 | 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 | 1510-1610 | Sentence | denotes | The negative charges mediate the interaction of GAGs and their ligands through electrostatic forces. |
| T614 | 1611-1685 | Sentence | denotes | Interaction of HSPG with ligands potentiates many virus infectious cycles. |
| T615 | 1686-1958 | 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 | 1959-2066 | 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 |
|---|---|---|---|---|---|
| T5 | 7-22 | GlycoEpitope | denotes | Heparan Sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T6 | 24-26 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T7 | 111-126 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T8 | 859-861 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T9 | 888-890 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T10 | 1021-1023 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T11 | 1137-1152 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T12 | 1425-1427 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T13 | 1432-1443 | GlycoEpitope | denotes | chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32604730-25187545-51944087 | 174-176 | 25187545 | denotes | 87 |
| 32604730-17692355-51944088 | 177-180 | 17692355 | denotes | 124 |
| 32604730-31315999-51944089 | 706-709 | 31315999 | denotes | 125 |
| 32604730-12369092-51944090 | 1312-1315 | 12369092 | denotes | 126 |
| 32604730-12761549-51944091 | 1504-1507 | 12761549 | denotes | 127 |
| 32604730-11507222-51944092 | 1949-1952 | 11507222 | denotes | 128 |
| 32604730-11518721-51944093 | 1953-1956 | 11518721 | denotes | 129 |
| T42843 | 174-176 | 25187545 | denotes | 87 |
| T53854 | 177-180 | 17692355 | denotes | 124 |
| T94580 | 706-709 | 31315999 | denotes | 125 |
| T83893 | 1312-1315 | 12369092 | denotes | 126 |
| T73934 | 1504-1507 | 12761549 | denotes | 127 |
| T91960 | 1949-1952 | 11507222 | denotes | 128 |
| T65288 | 1953-1956 | 11518721 | denotes | 129 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T20 | 1770-1779 | Phenotype | denotes | papilloma | http://purl.obolibrary.org/obo/HP_0012740 |
| T21 | 1806-1815 | Phenotype | denotes | hepatitis | http://purl.obolibrary.org/obo/HP_0012115 |
| T22 | 1833-1849 | Phenotype | denotes | Kaposi’s sarcoma | http://purl.obolibrary.org/obo/HP_0100726 |
| T23 | 1880-1889 | Phenotype | denotes | papilloma | http://purl.obolibrary.org/obo/HP_0012740 |