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PMC:7352545 / 62119-64185 JSONTXT

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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