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PMC:7373848 / 8702-10827 JSONTXT

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LitCovid_Glycan-Motif-Structure

Id Subject Object Predicate Lexical cue
T1 225-235 https://glytoucan.org/Structures/Glycans/G00017MO denotes hyaluronan
T2 1785-1796 https://glytoucan.org/Structures/Glycans/G43702JT denotes chondroitin

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T136 21-31 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T137 55-72 Body_part denotes endothelial cells http://purl.org/sig/ont/fma/fma66772
T138 67-72 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T139 80-88 Body_part denotes arteries http://purl.org/sig/ont/fma/fma63812
T140 90-95 Body_part denotes veins http://purl.org/sig/ont/fma/fma63814
T141 146-156 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T142 166-172 Body_part denotes plasma http://purl.org/sig/ont/fma/fma62970
T143 173-181 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T144 192-205 Body_part denotes proteoglycans http://purl.org/sig/ont/fma/fma63015
T145 207-220 Body_part denotes glycoproteins http://purl.org/sig/ont/fma/fma62925
T146 225-235 Body_part denotes hyaluronan http://purl.org/sig/ont/fma/fma63014
T147 265-281 Body_part denotes Endothelial cell http://purl.org/sig/ont/fma/fma66772
T148 277-281 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T149 282-292 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T150 440-450 Body_part denotes Leukocytes http://purl.org/sig/ont/fma/fma62852
T151 478-487 Body_part denotes capillary http://purl.org/sig/ont/fma/fma63194
T152 507-517 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T153 592-600 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T154 618-632 Body_part denotes elastic fibers http://purl.org/sig/ont/fma/fma63868
T155 678-688 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T156 733-741 Body_part denotes Cytokine http://purl.org/sig/ont/fma/fma84050
T157 814-823 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T158 875-885 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T159 913-922 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T160 975-985 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T161 1194-1204 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T162 1246-1256 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T163 1286-1302 Body_part denotes endothelial cell http://purl.org/sig/ont/fma/fma66772
T164 1298-1302 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T165 1390-1401 Body_part denotes capillaries http://purl.org/sig/ont/fma/fma63194
T166 1416-1426 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T167 1520-1530 Body_part denotes glycocalyx http://purl.org/sig/ont/fma/fma66838
T168 1658-1673 Body_part denotes heparan sulfate http://purl.org/sig/ont/fma/fma63023
T169 1785-1804 Body_part denotes chondroitin sulfate http://purl.org/sig/ont/fma/fma82837
T170 1809-1824 Body_part denotes hyaluronic acid http://purl.org/sig/ont/fma/fma63014
T171 1934-1949 Body_part denotes heparan sulfate http://purl.org/sig/ont/fma/fma63023
T172 2037-2049 Body_part denotes disaccharide http://purl.org/sig/ont/fma/fma82744

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T56 478-487 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
99 36-43 Chemical denotes luminal MESH:D010634
112 1847-1849 Gene denotes β4 Gene:28898
113 1840-1842 Gene denotes α4 Gene:28898
114 1375-1378 Species denotes rat Tax:10116
115 1353-1366 Chemical denotes ruthenium-red MESH:D012430
116 1658-1673 Chemical denotes heparan sulfate MESH:D006497
117 1785-1804 Chemical denotes chondroitin sulfate MESH:D002809
118 1809-1824 Chemical denotes hyaluronic acid MESH:D006820
119 1899-1910 Chemical denotes saccharides MESH:D002241
120 1934-1964 Chemical denotes heparan sulfate octasaccharide
121 2037-2049 Chemical denotes disaccharide MESH:D004187
122 1570-1576 Disease denotes sepsis MESH:D018805
123 1859-1869 Disease denotes glycosidic MESH:C563601
126 1008-1023 Disease denotes chronic disease MESH:D002908
127 1036-1053 Disease denotes diabetes mellitus MESH:D003920

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T26 1036-1053 Disease denotes diabetes mellitus http://purl.obolibrary.org/obo/MONDO_0005015
T27 1103-1113 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T28 1612-1618 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T155 55-72 http://purl.obolibrary.org/obo/CL_0000115 denotes endothelial cells
T156 80-88 http://purl.obolibrary.org/obo/UBERON_0001637 denotes arteries
T157 80-88 http://www.ebi.ac.uk/efo/EFO_0000814 denotes arteries
T158 90-95 http://purl.obolibrary.org/obo/UBERON_0001638 denotes veins
T159 90-95 http://www.ebi.ac.uk/efo/EFO_0000816 denotes veins
T160 128-129 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T161 166-172 http://purl.obolibrary.org/obo/UBERON_0001969 denotes plasma
T162 265-281 http://purl.obolibrary.org/obo/CL_0000115 denotes Endothelial cell
T163 293-296 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T164 462-463 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T165 634-636 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T166 751-761 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation
T167 1232-1233 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T168 1286-1302 http://purl.obolibrary.org/obo/CL_0000115 denotes endothelial cell
T169 1367-1374 http://purl.obolibrary.org/obo/CLO_0007225 denotes labeled
T170 1486-1487 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T171 1651-1657 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T172 1724-1733 http://purl.obolibrary.org/obo/SO_0000418 denotes signaling
T173 1932-1933 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T39 173-181 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T40 192-205 Chemical denotes proteoglycans http://purl.obolibrary.org/obo/CHEBI_37396
T41 207-220 Chemical denotes glycoproteins http://purl.obolibrary.org/obo/CHEBI_17089
T42 225-235 Chemical denotes hyaluronan http://purl.obolibrary.org/obo/CHEBI_132153|http://purl.obolibrary.org/obo/CHEBI_16336
T44 592-600 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T45 1330-1338 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T46 1353-1362 Chemical denotes ruthenium http://purl.obolibrary.org/obo/CHEBI_30682
T47 1658-1673 Chemical denotes heparan sulfate http://purl.obolibrary.org/obo/CHEBI_28815
T48 1658-1665 Chemical denotes heparan http://purl.obolibrary.org/obo/CHEBI_24500
T49 1666-1673 Chemical denotes sulfate http://purl.obolibrary.org/obo/CHEBI_16189
T50 1750-1759 Chemical denotes endocrine http://purl.obolibrary.org/obo/CHEBI_24621
T51 1785-1804 Chemical denotes chondroitin sulfate http://purl.obolibrary.org/obo/CHEBI_37397
T52 1797-1804 Chemical denotes sulfate http://purl.obolibrary.org/obo/CHEBI_16189
T53 1809-1824 Chemical denotes hyaluronic acid http://purl.obolibrary.org/obo/CHEBI_16336
T54 1820-1824 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T55 1899-1910 Chemical denotes saccharides http://purl.obolibrary.org/obo/CHEBI_16646
T56 1934-1964 Chemical denotes heparan sulfate octasaccharide http://purl.obolibrary.org/obo/CHEBI_142519
T57 1934-1949 Chemical denotes heparan sulfate http://purl.obolibrary.org/obo/CHEBI_28815
T58 1934-1941 Chemical denotes heparan http://purl.obolibrary.org/obo/CHEBI_24500
T59 1942-1949 Chemical denotes sulfate http://purl.obolibrary.org/obo/CHEBI_16189
T60 1950-1964 Chemical denotes octasaccharide http://purl.obolibrary.org/obo/CHEBI_61863
T61 2037-2049 Chemical denotes disaccharide http://purl.obolibrary.org/obo/CHEBI_36233

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T6 1036-1053 Phenotype denotes diabetes mellitus http://purl.obolibrary.org/obo/HP_0000819
T7 1570-1576 Phenotype denotes sepsis http://purl.obolibrary.org/obo/HP_0100806

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T37 416-438 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammatory responses
T38 986-997 http://purl.obolibrary.org/obo/GO_0009056 denotes degradation
T39 1501-1512 http://purl.obolibrary.org/obo/GO_0009056 denotes degradation
T40 1724-1733 http://purl.obolibrary.org/obo/GO_0023052 denotes signaling
T41 2008-2017 http://purl.obolibrary.org/obo/GO_0051923 denotes sulfation

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T1 1658-1673 GlycoEpitope denotes heparan sulfate http://www.glycoepitope.jp/epitopes/EP0086
T2 1785-1796 GlycoEpitope denotes chondroitin http://www.glycoepitope.jp/epitopes/EP0081
T3 1934-1949 GlycoEpitope denotes heparan sulfate http://www.glycoepitope.jp/epitopes/EP0086

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T54 0-31 Sentence denotes Vascular endothelial glycocalyx
T55 32-264 Sentence denotes The luminal surface of endothelial cells within arteries, veins and microvessels is coated with a thin (~ 500 nm) glycocalyx layer of plasma proteins, sulfated proteoglycans, glycoproteins and hyaluronan (reviewed in Weinbaum) [10].
T56 265-439 Sentence denotes Endothelial cell glycocalyx has several recognized functions, including maintaining vascular integrity, permeability, shear stress, mechanosensing and inflammatory responses.
T57 440-518 Sentence denotes Leukocytes traversing a small-caliber capillary actually crush the glycocalyx.
T58 519-638 Sentence denotes The transient deformation quickly corrects due to the elasticity of core proteins that behave like elastic fibers [11].
T59 639-732 Sentence denotes The properties of vascular endothelial glycocalyx layer change under inflammatory conditions.
T60 733-864 Sentence denotes Cytokine-mediated activation of proteases partially degrade the layer permitting leukocyte rolling, tethering and recruitment [12].
T61 865-962 Sentence denotes An intact glycocalyx can regulate the degree of leukocyte capture, recruitment and extravasation.
T62 963-1157 Sentence denotes Endothelial glycocalyx degradation occurs in chronic disease states like diabetes mellitus [13], significantly impacting responses to acute infectious and metabolic conditions [14, 15] (Fig. 4).
T63 1158-1768 Sentence denotes Fig. 4 Structure of the endothelial glycocalyx/endothelial surface layer. a Endothelial glycocalyx thickness is larger than the endothelial cell itself, as demonstrated by electron microscopy of ruthenium-red labeled rat myocardial capillaries. In vivo, the glycocalyx forms an even more substantial ESL, with thickness > 1 µm. b Pathological degradation of the glycocalyx/ESL during critical illnesses (such as sepsis) causes not only local endothelial injury, but also releases biologically active heparan sulfate fragments into the circulation that may influence signaling processes in an endocrine fashion.
T64 1769-1911 Sentence denotes For simplicity, chondroitin sulfate and hyaluronic acid are not shown. α4 and β4 refer to glycosidic bonds connecting constituent saccharides.
T65 1912-2055 Sentence denotes Inset: structure of a heparan sulfate octasaccharide fragment, demonstrating potential sites of sulfation within constituent disaccharide units
T66 2056-2071 Sentence denotes (From Oshima K.
T67 2072-2102 Sentence denotes Pulmonary Circulation 2017; 8:
T68 2103-2108 Sentence denotes 1–10.
T69 2109-2125 Sentence denotes With permission)

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T309 9-20 UBERON:0001986 denotes endothelial
T310 21-31 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T311 55-66 UBERON:0001986;CL:0000115 denotes endothelial
T312 67-72 CL:0000115 denotes cells
T313 80-88 UBERON:0001637 denotes arteries
T314 90-95 UBERON:0001638 denotes veins
T315 146-156 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T316 166-172 UBERON:0001969 denotes plasma
T317 192-205 CHEBI:37396;CHEBI:37396 denotes proteoglycans
T318 207-220 CHEBI:17089;CHEBI:17089;BV_11 denotes glycoproteins
T319 265-276 UBERON:0001986;CL:0000115 denotes Endothelial
T320 277-281 CL:0000115 denotes cell
T321 282-292 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T322 440-450 CL:0000738 denotes Leukocytes
T323 478-487 UBERON:0001982 denotes capillary
T324 507-517 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T325 666-677 UBERON:0001986 denotes endothelial
T326 678-688 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T327 814-823 CL:0000738 denotes leukocyte
T328 890-898 GO:0065007 denotes regulate
T329 913-922 CL:0000738 denotes leukocyte
T330 948-961 GO:0072672 denotes extravasation
T331 963-974 UBERON:0001986;GO:0043161 denotes Endothelial
T332 975-985 GO:0043161;CHEBI:17089;CHEBI:17089 denotes glycocalyx
T333 986-997 GO:0009056 denotes degradation
T334 1118-1127 GO:0008152 denotes metabolic
T335 1182-1193 UBERON:0001986 denotes endothelial
T336 1194-1204 CHEBI:17089;CHEBI:17089 denotes glycocalyx
T337 1205-1216 UBERON:0001986 denotes endothelial
T338 1234-1245 UBERON:0001986 denotes Endothelial
T339 1286-1297 UBERON:0001986;CL:0000115 denotes endothelial
T340 1298-1302 CL:0000115 denotes cell
T341 1330-1338 CHEBI:10545;CHEBI:10545 denotes electron
T342 1353-1366 CHEBI:34956;CHEBI:34956 denotes ruthenium-red
T343 1375-1378 NCBITaxon:10114 denotes rat
T344 1379-1389 UBERON:0002349 denotes myocardial
T345 1390-1401 UBERON:0001982 denotes capillaries
T346 1600-1611 UBERON:0001986 denotes endothelial
T347 1658-1673 CHEBI:28815;CHEBI:28815 denotes heparan sulfate
T348 1785-1804 CHEBI:37397;CHEBI:37397 denotes chondroitin sulfate
T349 1809-1819 CL:0000743;CHEBI:16336;CHEBI:16336 denotes hyaluronic
T350 1820-1824 CHEBI:16336;CHEBI:16336 denotes acid
T351 1859-1869 CHEBI:24400;CHEBI:24400 denotes glycosidic
T352 1899-1910 CHEBI:32111;CHEBI:32111 denotes saccharides
T353 1934-1949 CHEBI:28815;CHEBI:28815 denotes heparan sulfate
T354 1950-1964 CHEBI:61863;CHEBI:61863 denotes octasaccharide
T355 2037-2049 CHEBI:36233;CHEBI:36233 denotes disaccharide
T356 2072-2081 UBERON:0002048 denotes Pulmonary

2_test

Id Subject Object Predicate Lexical cue
32700024-17373886-64991451 260-262 17373886 denotes 10
32700024-15545600-64991452 634-636 15545600 denotes 11
32700024-14704229-64991453 860-862 14704229 denotes 12
32700024-29880486-64991454 1055-1057 29880486 denotes 13
32700024-32354384-64991455 1140-1142 32354384 denotes 14
32700024-28759412-64991456 1144-1146 28759412 denotes 15