PMC:7560808 / 7863-9971
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T37 | 37-47 | Body_part | denotes | glycocalyx | http://purl.org/sig/ont/fma/fma66838 |
| T38 | 163-171 | Body_part | denotes | syndecan | http://purl.org/sig/ont/fma/fma63021 |
| T39 | 253-261 | Body_part | denotes | syndecan | http://purl.org/sig/ont/fma/fma63021 |
| T40 | 970-980 | Body_part | denotes | glycocalyx | http://purl.org/sig/ont/fma/fma66838 |
| T41 | 1179-1189 | Body_part | denotes | glycocalyx | http://purl.org/sig/ont/fma/fma66838 |
| T42 | 1500-1515 | Body_part | denotes | heparan sulfate | http://purl.org/sig/ont/fma/fma63023 |
| T43 | 1517-1519 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T44 | 1543-1560 | Body_part | denotes | endothelial cells | http://purl.org/sig/ont/fma/fma66772 |
| T45 | 1555-1560 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T46 | 1585-1587 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T47 | 1647-1652 | Body_part | denotes | serum | http://purl.org/sig/ont/fma/fma63083 |
| T48 | 1818-1820 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T49 | 1826-1836 | Body_part | denotes | glycocalyx | http://purl.org/sig/ont/fma/fma66838 |
| T50 | 1846-1851 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T51 | 1874-1879 | Body_part | denotes | serum | http://purl.org/sig/ont/fma/fma63083 |
| T52 | 1905-1922 | Body_part | denotes | endothelial cells | http://purl.org/sig/ont/fma/fma66772 |
| T53 | 1917-1922 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T54 | 1940-1942 | Body_part | denotes | HS | http://purl.org/sig/ont/fma/fma63023 |
| T55 | 2020-2025 | Body_part | denotes | serum | http://purl.org/sig/ont/fma/fma63083 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T16 | 1647-1652 | Body_part | denotes | serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
| T17 | 1874-1879 | Body_part | denotes | serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
| T18 | 2020-2025 | Body_part | denotes | serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T52 | 11-17 | Disease | denotes | Injury | http://purl.obolibrary.org/obo/MONDO_0021178 |
| T53 | 79-87 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T54 | 219-227 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T55 | 302-310 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T56 | 384-392 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T57 | 450-458 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T58 | 608-616 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T59 | 707-715 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T60 | 805-813 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T61 | 850-858 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T62 | 1079-1087 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T63 | 1119-1127 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T64 | 1671-1679 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T65 | 1865-1873 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T66 | 2011-2019 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T64 | 145-146 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T65 | 160-161 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T66 | 517-525 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activity |
| T67 | 1313-1317 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T68 | 1336-1342 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | tested |
| T69 | 1354-1355 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T70 | 1384-1389 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | tests |
| T71 | 1395-1396 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T72 | 1417-1422 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | tests |
| T73 | 1543-1560 | http://purl.obolibrary.org/obo/CL_0000115 | denotes | endothelial cells |
| T74 | 1564-1565 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T75 | 1656-1657 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T76 | 1707-1708 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T77 | 1846-1851 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T78 | 1905-1922 | http://purl.obolibrary.org/obo/CL_0000115 | denotes | endothelial cells |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T32 | 1500-1515 | Chemical | denotes | heparan sulfate | http://purl.obolibrary.org/obo/CHEBI_28815 |
| T33 | 1500-1507 | Chemical | denotes | heparan | http://purl.obolibrary.org/obo/CHEBI_24500 |
| T34 | 1508-1515 | Chemical | denotes | sulfate | http://purl.obolibrary.org/obo/CHEBI_16189 |
| T35 | 1517-1519 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
| T37 | 1585-1587 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
| T39 | 1596-1600 | Chemical | denotes | DAPI | http://purl.obolibrary.org/obo/CHEBI_51231 |
| T40 | 1601-1607 | Chemical | denotes | nuclei | http://purl.obolibrary.org/obo/CHEBI_33252 |
| T41 | 1818-1820 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
| T43 | 1940-1942 | Chemical | denotes | HS | http://purl.obolibrary.org/obo/CHEBI_74056|http://purl.obolibrary.org/obo/CHEBI_28815 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T99 | 0-9 | Sentence | denotes | Figure 1. |
| T100 | 11-89 | Sentence | denotes | Injury to the endothelial glycocalyx in severe coronavirus disease (COVID-19). |
| T101 | 90-228 | Sentence | denotes | Scatter dot plots (median [interquartile range]) show (A) sTie-2 and (B) syndecan-1 concentrations for control and patients with COVID-19. |
| T102 | 229-273 | Sentence | denotes | Concentrations for both syndecan-1 (control: |
| T103 | 274-311 | Sentence | denotes | 41.5 [32.6–105.4] ng/ml vs. COVID-19: |
| T104 | 312-359 | Sentence | denotes | 336.5 [196.7–377.1] ng/ml) and sTie-2 (control: |
| T105 | 360-393 | Sentence | denotes | 18.4 [16–21.3] ng/ml vs COVID-19: |
| T106 | 394-680 | Sentence | denotes | 22.3 [19.7–27.3] ng/ml) were increased in patients with COVID-19. (C) Although both Hpa-1 (heparanase-1) concentration and activity were not significantly altered in comparison with control subjects, patients with COVID-19 showed an acquired deficiency in Hpa-2 (heparanase-2) (control: |
| T107 | 681-716 | Sentence | denotes | 18.7 [10.6–31.1] U/ml vs. COVID-19: |
| T108 | 717-737 | Sentence | denotes | 4.7 [2.6–5.1] U/ml). |
| T109 | 738-823 | Sentence | denotes | Consequentially, the Hpa-1:Hpa-2 ratio was higher in patients with COVID-19 (control: |
| T110 | 824-859 | Sentence | denotes | 0.08 [0.05–0.17] ng/U vs. COVID-19: |
| T111 | 860-1097 | Sentence | denotes | 0.35 [0.27–0.66] ng/U). (D) Sidestream darkfield imaging in patients allows the quantification of endothelial glycocalyx thickness as indicated by increased perfused boundary region; this was increased in patients with COVID-19 (control: |
| T112 | 1098-1128 | Sentence | denotes | 1.9 [1.8–1.9] μm vs. COVID-19: |
| T113 | 1129-1200 | Sentence | denotes | 2.1 [1.8–2.2] μm), indicating reduced endothelial glycocalyx thickness. |
| T114 | 1201-1880 | Sentence | denotes | For comparison of groups, first, the normal distribution (D’Agostino-Pearson omnibus and Shapiro-Wilk normality test) of variables was tested, and then (A and D) two-sided unpaired t tests and (B and C) Mann-Whitney tests were used accordingly. (E) Exemplary three-dimensional reconstruction of the heparan sulfate (HS) layer images of naive endothelial cells in a microfluidic chip (HS in red; DAPI nuclei staining in blue) after perfusion with serum of a patient with COVID-19 (middle row) compared with a healthy control subject (upper row) in both front and isometric view angles demonstrates the diffuse loss of HS-rich glycocalyx layer in cells treated with COVID-19 serum. |
| T115 | 1881-2108 | Sentence | denotes | In Hpa-2–overexpressing endothelial cells (lower row), the HS surface layer is protected from injurious effects by perfusion with COVID-19 serum. overexp = overexpressing; PBR = perfused boundary region; sTie-2 = soluble Tie-2. |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T5 | 1500-1515 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T6 | 1517-1519 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T7 | 1585-1587 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T8 | 1818-1820 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
| T9 | 1940-1942 | GlycoEpitope | denotes | HS | http://www.glycoepitope.jp/epitopes/EP0086 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 225 | 253-263 | Gene | denotes | syndecan-1 | Gene:6382 |
| 226 | 478-483 | Gene | denotes | Hpa-1 | Gene:10855 |
| 227 | 485-497 | Gene | denotes | heparanase-1 | Gene:10855 |
| 228 | 650-655 | Gene | denotes | Hpa-2 | Gene:60495 |
| 229 | 657-669 | Gene | denotes | heparanase-2 | Gene:60495 |
| 230 | 759-764 | Gene | denotes | Hpa-1 | Gene:10855 |
| 231 | 765-770 | Gene | denotes | Hpa-2 | Gene:60495 |
| 232 | 1884-1889 | Gene | denotes | Hpa-2 | Gene:60495 |
| 233 | 2053-2056 | Gene | denotes | PBR | Gene:706 |
| 234 | 2102-2107 | Gene | denotes | Tie-2 | Gene:7010 |
| 235 | 163-173 | Gene | denotes | syndecan-1 | Gene:6382 |
| 236 | 205-213 | Species | denotes | patients | Tax:9606 |
| 237 | 436-444 | Species | denotes | patients | Tax:9606 |
| 238 | 594-602 | Species | denotes | patients | Tax:9606 |
| 239 | 791-799 | Species | denotes | patients | Tax:9606 |
| 240 | 920-928 | Species | denotes | patients | Tax:9606 |
| 241 | 1065-1073 | Species | denotes | patients | Tax:9606 |
| 242 | 1658-1665 | Species | denotes | patient | Tax:9606 |
| 243 | 1500-1515 | Chemical | denotes | heparan sulfate | MESH:D006497 |
| 244 | 1940-1942 | Chemical | denotes | HS | MESH:D006497 |
| 245 | 58-77 | Disease | denotes | coronavirus disease | MESH:D018352 |
| 246 | 79-87 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 247 | 219-227 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 248 | 302-310 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 249 | 384-392 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 250 | 450-458 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 251 | 608-616 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 252 | 707-715 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 253 | 805-813 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 254 | 850-858 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 255 | 1079-1087 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 256 | 1119-1127 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 257 | 1671-1679 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 258 | 1865-1873 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 259 | 2011-2019 | Disease | denotes | COVID-19 | MESH:C000657245 |