PMC:7354481 / 32636-35176
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T204 | 237-241 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T205 | 242-248 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T206 | 702-705 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T207 | 758-762 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T208 | 859-863 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T209 | 871-875 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T210 | 886-888 | Body_part | denotes | A1 | http://purl.org/sig/ont/fma/fma66592 |
| T211 | 957-961 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T212 | 969-973 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T213 | 1080-1087 | Body_part | denotes | genomes | http://purl.org/sig/ont/fma/fma84116 |
| T214 | 1132-1139 | Body_part | denotes | genomes | http://purl.org/sig/ont/fma/fma84116 |
| T215 | 1285-1292 | Body_part | denotes | synapse | http://purl.org/sig/ont/fma/fma67408 |
| T216 | 1433-1436 | Body_part | denotes | HIV | http://purl.org/sig/ont/fma/fma278683 |
| T217 | 1503-1506 | Body_part | denotes | HIV | http://purl.org/sig/ont/fma/fma278683 |
| T218 | 1524-1535 | Body_part | denotes | macrophages | http://purl.org/sig/ont/fma/fma63261 |
| T219 | 1611-1614 | Body_part | denotes | HIV | http://purl.org/sig/ont/fma/fma278683 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T29 | 237-241 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T30 | 242-248 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T31 | 758-762 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T32 | 859-863 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T33 | 957-961 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T147 | 166-174 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T148 | 372-409 | Disease | denotes | chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T149 | 392-409 | Disease | denotes | pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005275 |
| T150 | 411-415 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T151 | 418-422 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T152 | 449-468 | Disease | denotes | respiratory disease | http://purl.obolibrary.org/obo/MONDO_0005087 |
| T153 | 504-516 | Disease | denotes | inflammation | http://purl.obolibrary.org/obo/MONDO_0021166 |
| T154 | 572-576 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T155 | 662-666 | Disease | denotes | COPD | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T156 | 736-746 | Disease | denotes | carcinomas | http://purl.obolibrary.org/obo/MONDO_0004993 |
| T157 | 758-769 | Disease | denotes | lung cancer | http://purl.obolibrary.org/obo/MONDO_0008903 |
| T158 | 763-769 | Disease | denotes | cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T159 | 859-870 | Disease | denotes | lung cancer | http://purl.obolibrary.org/obo/MONDO_0008903 |
| T160 | 864-870 | Disease | denotes | cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T161 | 957-968 | Disease | denotes | lung cancer | http://purl.obolibrary.org/obo/MONDO_0008903 |
| T162 | 962-968 | Disease | denotes | cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T163 | 1069-1077 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T164 | 1439-1448 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T165 | 1624-1633 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T166 | 1740-1751 | Disease | denotes | hepatitis C | http://purl.obolibrary.org/obo/MONDO_0005231 |
| T167 | 1740-1749 | Disease | denotes | hepatitis | http://purl.obolibrary.org/obo/MONDO_0002251 |
| T168 | 1840-1881 | Disease | denotes | simian acquired immunodeficiency syndrome | http://purl.obolibrary.org/obo/MONDO_0025484 |
| T169 | 1847-1881 | Disease | denotes | acquired immunodeficiency syndrome | http://purl.obolibrary.org/obo/MONDO_0012268 |
| T170 | 1847-1872 | Disease | denotes | acquired immunodeficiency | http://purl.obolibrary.org/obo/MONDO_0017769 |
| T171 | 1856-1872 | Disease | denotes | immunodeficiency | http://purl.obolibrary.org/obo/MONDO_0021094 |
| T172 | 1883-1888 | Disease | denotes | SAIDS | http://purl.obolibrary.org/obo/MONDO_0025484 |
| T173 | 1951-1960 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T174 | 1961-1976 | Disease | denotes | virus infection | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T175 | 1967-1976 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T176 | 2171-2187 | Disease | denotes | viral infections | http://purl.obolibrary.org/obo/MONDO_0005108 |
| T177 | 2204-2212 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T178 | 2287-2296 | Disease | denotes | analgesia | http://purl.obolibrary.org/obo/MONDO_0000675 |
| T179 | 2492-2500 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T334 | 64-65 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T335 | 237-241 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T336 | 237-241 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T337 | 318-319 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T338 | 429-435 | http://purl.obolibrary.org/obo/UBERON_0001005 | denotes | airway |
| T339 | 523-524 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T340 | 712-715 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T341 | 758-762 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T342 | 758-762 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T343 | 779-782 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T344 | 843-844 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T345 | 859-863 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T346 | 859-863 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T347 | 864-880 | http://purl.obolibrary.org/obo/OBI_0001906 | denotes | cancer cell line |
| T348 | 864-880 | http://www.ebi.ac.uk/cellline#cancer_cell_line | denotes | cancer cell line |
| T349 | 957-961 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T350 | 957-961 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T351 | 962-979 | http://purl.obolibrary.org/obo/OBI_0001906 | denotes | cancer cell lines |
| T352 | 962-979 | http://www.ebi.ac.uk/cellline#cancer_cell_line | denotes | cancer cell lines |
| T353 | 1404-1407 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T354 | 1477-1480 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T355 | 1634-1637 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T356 | 1752-1757 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T357 | 1900-1907 | http://purl.obolibrary.org/obo/NCBITaxon_9479 | denotes | monkeys |
| T358 | 1961-1966 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T88 | 1220-1231 | Chemical | denotes | xenobiotics | http://purl.obolibrary.org/obo/CHEBI_35703 |
| T89 | 1235-1250 | Chemical | denotes | cytochrome P450 | http://purl.obolibrary.org/obo/CHEBI_38559 |
| T90 | 1235-1245 | Chemical | denotes | cytochrome | http://purl.obolibrary.org/obo/CHEBI_4056 |
| T91 | 1252-1260 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T93 | 1304-1312 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T95 | 1458-1466 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T97 | 1659-1667 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T99 | 1681-1685 | Chemical | denotes | drug | http://purl.obolibrary.org/obo/CHEBI_23888 |
| T100 | 1698-1706 | Chemical | denotes | Morphine | http://purl.obolibrary.org/obo/CHEBI_17303 |
| T101 | 1993-2001 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T103 | 2058-2066 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T105 | 2224-2232 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
| T107 | 2423-2431 | Chemical | denotes | morphine | http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T36 | 372-409 | Phenotype | denotes | chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/HP_0006510 |
| T37 | 411-415 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T38 | 418-422 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T39 | 572-576 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T40 | 662-666 | Phenotype | denotes | COPD | http://purl.obolibrary.org/obo/HP_0006510 |
| T41 | 736-746 | Phenotype | denotes | carcinomas | http://purl.obolibrary.org/obo/HP_0030731 |
| T42 | 758-769 | Phenotype | denotes | lung cancer | http://purl.obolibrary.org/obo/HP_0100526 |
| T43 | 859-870 | Phenotype | denotes | lung cancer | http://purl.obolibrary.org/obo/HP_0100526 |
| T44 | 957-968 | Phenotype | denotes | lung cancer | http://purl.obolibrary.org/obo/HP_0100526 |
| T45 | 1740-1749 | Phenotype | denotes | hepatitis | http://purl.obolibrary.org/obo/HP_0012115 |
| T46 | 1856-1872 | Phenotype | denotes | immunodeficiency | http://purl.obolibrary.org/obo/HP_0002721 |
| T47 | 2118-2123 | Phenotype | denotes | cough | http://purl.obolibrary.org/obo/HP_0012735 |
| T48 | 2345-2350 | Phenotype | denotes | cough | http://purl.obolibrary.org/obo/HP_0012735 |
| T49 | 2355-2364 | Phenotype | denotes | agitation | http://purl.obolibrary.org/obo/HP_0000713 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T105 | 504-516 | http://purl.obolibrary.org/obo/GO_0006954 | denotes | inflammation |
| T106 | 625-635 | http://purl.obolibrary.org/obo/GO_0065007 | denotes | regulation |
| T107 | 1206-1216 | http://purl.obolibrary.org/obo/GO_0008152 | denotes | metabolism |
| T108 | 1235-1245 | http://purl.obolibrary.org/obo/GO_0045158 | denotes | cytochrome |
| T109 | 1235-1245 | http://purl.obolibrary.org/obo/GO_0045157 | denotes | cytochrome |
| T110 | 1235-1245 | http://purl.obolibrary.org/obo/GO_0045156 | denotes | cytochrome |
| T111 | 1235-1245 | http://purl.obolibrary.org/obo/GO_0008121 | denotes | cytochrome |
| T112 | 2171-2187 | http://purl.obolibrary.org/obo/GO_0016032 | denotes | viral infections |
| T113 | 2450-2467 | http://purl.obolibrary.org/obo/GO_0019079 | denotes | viral replication |
| T114 | 2450-2467 | http://purl.obolibrary.org/obo/GO_0019058 | denotes | viral replication |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T214 | 0-15 | Sentence | denotes | 4.1.3. miR-3611 |
| T215 | 16-128 | Sentence | denotes | In our current study, we found that miR-3611 is a positive hit for stem loop region and mature miRNA prediction. |
| T216 | 129-317 | Sentence | denotes | Because of its potential presence in SARS-CoV-2-mediated cellular responses, we have analysed data from the lung tissue biopsy database (PRJNA615032 Bioproject) to understand its function. |
| T217 | 318-417 | Sentence | denotes | A previous study reported altered miRNA expression in chronic obstructive pulmonary disease (COPD). |
| T218 | 418-522 | Sentence | denotes | COPD is an airway disorder and respiratory disease that is associated with persistent inflammation [60]. |
| T219 | 523-681 | Sentence | denotes | A study on miR expression analysis, conducted on COPD and healthy volunteers, showed significant down-regulation of miR-3611 expression in COPD patients [61]. |
| T220 | 682-775 | Sentence | denotes | The long non-coding RNA, H19, has been linked to many carcinomas, including lung cancer [62]. |
| T221 | 776-985 | Sentence | denotes | It has been shown that miR-3611 is significantly down-regulated in a H19 knockdown lung cancer cell line (SPC-A1), which indicated overexpression of this miR in ‘normal’ H19 intact lung cancer cell lines [63]. |
| T222 | 986-1140 | Sentence | denotes | In our study, we identified that miR-3611 shows high similarity with all four main SARS-CoV-2 genomes and we did not detect any mutations between genomes. |
| T223 | 1141-1293 | Sentence | denotes | However, miR-3611 was strongly associated with KEGG pathways for metabolism of xenobiotics by cytochrome P450, morphine addiction and GABAergic synapse. |
| T224 | 1294-1385 | Sentence | denotes | Moreover, morphine addiction was, besides linkage with miR-3611, also linked to miR-5197-3. |
| T225 | 1386-1576 | Sentence | denotes | This KEGG pathway has been related to enhanced HIV-1 infection [30] and morphine treatment has been shown to promote HIV-1 replication in macrophages via inhibition of the TLR9 pathway [64]. |
| T226 | 1577-1697 | Sentence | denotes | Furthermore, an increased rate of HIV-1/HTLV-I infection has been observed due to morphine in injection drug users [65]. |
| T227 | 1698-1792 | Sentence | denotes | Morphine is also associated with enhanced hepatitis C virus (HCV) replicon expression [66,67]. |
| T228 | 1793-2026 | Sentence | denotes | Opioids have furthermore been shown to enhance simian acquired immunodeficiency syndrome (SAIDS) in rhesus monkeys [68], while reduced clearance of pulmonary influenza virus infection was observed in morphine-treated Lewis rats [69]. |
| T229 | 2027-2215 | Sentence | denotes | Interestingly, opioids such as morphine are also used as indirect antitussives to suppress cough, which is commonly associated with respiratory viral infections [70], including SARS-CoV-2. |
| T230 | 2216-2391 | Sentence | denotes | Indeed, morphine was used in recent cases in China during sedation and analgesia for endotracheal intubation, to avoid patients’ cough and agitation during the procedure [39]. |
| T231 | 2392-2540 | Sentence | denotes | In light of the association of morphine with promotion of viral replication, it may have effects in SARS-CoV-2 that need to be further investigated. |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32512929-9666259-144200748 | 2189-2191 | 9666259 | denotes | 70 |
| 32512929-28534971-144200739 | 771-773 | 28534971 | denotes | 62 |
| 32512929-26536864-144200740 | 981-983 | 26536864 | denotes | 63 |
| 32512929-25516281-144200741 | 1450-1452 | 25516281 | denotes | 30 |
| 32512929-25609801-144200742 | 1572-1574 | 25609801 | denotes | 64 |
| 32512929-29026137-144200743 | 1693-1695 | 29026137 | denotes | 65 |
| 32512929-12640199-144200744 | 1785-1787 | 12640199 | denotes | 66 |
| 32512929-12937158-144200745 | 1788-1790 | 12937158 | denotes | 67 |
| 32512929-17674315-144200746 | 1909-1911 | 17674315 | denotes | 68 |
| 32512929-15769657-144200747 | 2022-2024 | 15769657 | denotes | 69 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 653 | 7-15 | Chemical | denotes | miR-3611 | |
| 706 | 52-60 | Gene | denotes | miR-3611 | Gene:100500890 |
| 707 | 639-647 | Gene | denotes | miR-3611 | Gene:100500890 |
| 708 | 707-710 | Gene | denotes | H19 | Gene:283120 |
| 709 | 799-807 | Gene | denotes | miR-3611 | Gene:100500890 |
| 710 | 845-848 | Gene | denotes | H19 | Gene:283120 |
| 711 | 1019-1027 | Gene | denotes | miR-3611 | Gene:100500890 |
| 712 | 1150-1158 | Gene | denotes | miR-3611 | Gene:100500890 |
| 713 | 1349-1357 | Gene | denotes | miR-3611 | Gene:100500890 |
| 714 | 1558-1562 | Gene | denotes | TLR9 | Gene:54106 |
| 715 | 1374-1382 | Gene | denotes | miR-5197 | Gene:100846991 |
| 716 | 946-949 | Gene | denotes | H19 | Gene:283120 |
| 717 | 166-176 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 718 | 667-675 | Species | denotes | patients | Tax:9606 |
| 719 | 1069-1079 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 720 | 1503-1508 | Species | denotes | HIV-1 | Tax:11676 |
| 721 | 1740-1757 | Species | denotes | hepatitis C virus | Tax:11103 |
| 722 | 1893-1907 | Species | denotes | rhesus monkeys | Tax:9544 |
| 723 | 2016-2020 | Species | denotes | rats | Tax:10116 |
| 724 | 2204-2214 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 725 | 2335-2343 | Species | denotes | patients | Tax:9606 |
| 726 | 2492-2502 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 727 | 1759-1762 | Species | denotes | HCV | Tax:11103 |
| 728 | 1252-1260 | Chemical | denotes | morphine | MESH:D009020 |
| 729 | 1304-1312 | Chemical | denotes | morphine | MESH:D009020 |
| 730 | 1458-1466 | Chemical | denotes | morphine | MESH:D009020 |
| 731 | 1659-1667 | Chemical | denotes | morphine | MESH:D009020 |
| 732 | 1698-1706 | Chemical | denotes | Morphine | MESH:D009020 |
| 733 | 1993-2001 | Chemical | denotes | morphine | MESH:D009020 |
| 734 | 2058-2066 | Chemical | denotes | morphine | MESH:D009020 |
| 735 | 2224-2232 | Chemical | denotes | morphine | MESH:D009020 |
| 736 | 2423-2431 | Chemical | denotes | morphine | MESH:D009020 |
| 737 | 372-409 | Disease | denotes | chronic obstructive pulmonary disease | MESH:D029424 |
| 738 | 411-415 | Disease | denotes | COPD | MESH:D029424 |
| 739 | 418-422 | Disease | denotes | COPD | MESH:D029424 |
| 740 | 429-444 | Disease | denotes | airway disorder | MESH:D000402 |
| 741 | 449-468 | Disease | denotes | respiratory disease | MESH:D012140 |
| 742 | 504-516 | Disease | denotes | inflammation | MESH:D007249 |
| 743 | 572-576 | Disease | denotes | COPD | MESH:D029424 |
| 744 | 662-666 | Disease | denotes | COPD | MESH:D029424 |
| 745 | 736-746 | Disease | denotes | carcinomas | MESH:D009369 |
| 746 | 758-769 | Disease | denotes | lung cancer | MESH:D008175 |
| 747 | 859-870 | Disease | denotes | lung cancer | MESH:D008175 |
| 748 | 957-968 | Disease | denotes | lung cancer | MESH:D008175 |
| 749 | 1433-1448 | Disease | denotes | HIV-1 infection | MESH:D015658 |
| 750 | 1611-1633 | Disease | denotes | HIV-1/HTLV-I infection | MESH:D015490 |
| 751 | 1856-1881 | Disease | denotes | immunodeficiency syndrome | MESH:D007153 |
| 752 | 1961-1976 | Disease | denotes | virus infection | MESH:D001102 |
| 753 | 2118-2123 | Disease | denotes | cough | MESH:D003371 |
| 754 | 2159-2187 | Disease | denotes | respiratory viral infections | |
| 755 | 2345-2350 | Disease | denotes | cough | MESH:D003371 |
| 756 | 2355-2364 | Disease | denotes | agitation | MESH:D011595 |
| 757 | 882-888 | CellLine | denotes | SPC-A1 | CVCL:6955 |