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PMC:7565665 / 36390-38536 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T236 83-87 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T237 180-185 Body_part denotes mucus http://purl.org/sig/ont/fma/fma66938
T238 374-378 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T239 969-980 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T240 1263-1274 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T241 1367-1370 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T242 1451-1462 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T243 1527-1532 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T244 1616-1621 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T245 1783-1794 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T246 1827-1832 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T247 1930-1934 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T248 2104-2108 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T63 83-87 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T64 180-185 Body_part denotes mucus http://purl.obolibrary.org/obo/UBERON_0000912
T65 374-378 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T66 2104-2108 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T297 26-41 Disease denotes Cystic Fibrosis http://purl.obolibrary.org/obo/MONDO_0009061
T298 42-57 Disease denotes Cystic fibrosis http://purl.obolibrary.org/obo/MONDO_0009061
T299 63-95 Disease denotes chronic obstructive lung disease http://purl.obolibrary.org/obo/MONDO_0005002
T300 71-95 Disease denotes obstructive lung disease http://purl.obolibrary.org/obo/MONDO_0002267
T301 83-95 Disease denotes lung disease http://purl.obolibrary.org/obo/MONDO_0005275
T302 125-135 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T303 379-391 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T304 760-762 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T305 878-880 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T306 897-907 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T307 966-968 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T308 1031-1033 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T309 1061-1081 Disease denotes bacterial infections http://purl.obolibrary.org/obo/MONDO_0005113
T310 1260-1262 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T311 1448-1450 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T312 1606-1608 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T313 1780-1782 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T314 2083-2085 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T315 2104-2116 Disease denotes lung disease http://purl.obolibrary.org/obo/MONDO_0005275

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T396 61-62 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T397 83-87 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T398 83-87 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T399 228-234 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T400 283-284 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T401 331-335 http://purl.obolibrary.org/obo/PR_000001044 denotes CFTR
T402 374-378 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T403 374-378 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T404 490-494 http://purl.obolibrary.org/obo/PR_000001044 denotes CFTR
T405 610-614 http://purl.obolibrary.org/obo/PR_000001044 denotes CFTR
T406 1002-1012 http://purl.obolibrary.org/obo/CL_0000234 denotes phagocytic
T407 1013-1021 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T408 1135-1136 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T409 1179-1180 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T410 1248-1256 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T411 1527-1532 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T412 1554-1555 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T413 1594-1602 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T414 1616-1621 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T415 1632-1633 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T416 1695-1697 http://purl.obolibrary.org/obo/CLO_0051741 denotes c1
T417 1733-1734 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T418 1827-1832 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T419 1930-1934 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T420 1976-1977 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T421 2053-2054 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T422 2104-2108 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T423 2104-2108 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T191 397-400 Chemical denotes ROS http://purl.obolibrary.org/obo/CHEBI_26523
T192 504-507 Chemical denotes ROS http://purl.obolibrary.org/obo/CHEBI_26523
T193 1322-1331 Chemical denotes bisulfite http://purl.obolibrary.org/obo/CHEBI_17137
T194 1367-1370 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T195 1524-1526 Chemical denotes WT http://purl.obolibrary.org/obo/CHEBI_141450

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
901 26-41 Disease denotes Cystic Fibrosis MESH:D003550
923 331-335 Gene denotes CFTR Gene:1080
924 490-494 Gene denotes CFTR Gene:1080
925 547-555 Gene denotes Beclin-1 Gene:8678
926 610-614 Gene denotes CFTR Gene:1080
927 620-623 Gene denotes p62 Gene:51164
928 624-629 Gene denotes HDAC6 Gene:10013
929 1439-1444 Gene denotes Atg12 Gene:9140
930 508-511 Gene denotes TG2 Gene:21817
931 1034-1042 Species denotes patients Tax:9606
932 1091-1104 Species denotes P. aeruginosa Tax:287
933 1109-1133 Species denotes Burkholderia cenocepacia Tax:95486
934 1135-1149 Species denotes B. cenocepacia Tax:95486
935 397-400 Chemical denotes ROS MESH:D017382
936 504-507 Chemical denotes ROS MESH:D017382
937 42-57 Disease denotes Cystic fibrosis MESH:D003550
938 63-95 Disease denotes chronic obstructive lung disease MESH:D029424
939 125-135 Disease denotes infections MESH:D007239
940 228-246 Disease denotes airway obstruction MESH:D000402
941 374-391 Disease denotes lung inflammation MESH:D011014
942 897-907 Disease denotes infections MESH:D007239
943 1061-1081 Disease denotes bacterial infections MESH:D001424
948 1691-1694 Gene denotes Mir Gene:220972
949 1698-1706 Gene denotes Mir17-92 Gene:407975
950 1976-1990 Species denotes B. cenocepacia Tax:95486
951 2104-2116 Disease denotes lung disease MESH:D008171

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T132 71-95 Phenotype denotes obstructive lung disease http://purl.obolibrary.org/obo/HP_0006536
T133 115-135 Phenotype denotes recurrent infections http://purl.obolibrary.org/obo/HP_0002719
T134 158-174 Phenotype denotes oxidative stress http://purl.obolibrary.org/obo/HP_0025464
T135 889-907 Phenotype denotes chronic infections http://purl.obolibrary.org/obo/HP_0031035
T136 935-951 Phenotype denotes oxidative stress http://purl.obolibrary.org/obo/HP_0025464
T137 1052-1081 Phenotype denotes prone to bacterial infections http://purl.obolibrary.org/obo/HP_0002718
T138 2104-2116 Phenotype denotes lung disease http://purl.obolibrary.org/obo/HP_0002088

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T483 5-14 http://purl.obolibrary.org/obo/GO_0016236 denotes Autophagy
T484 5-14 http://purl.obolibrary.org/obo/GO_0006914 denotes Autophagy
T485 331-335 http://purl.obolibrary.org/obo/GO_0005260 denotes CFTR
T486 379-391 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation
T487 410-419 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T488 410-419 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T489 490-494 http://purl.obolibrary.org/obo/GO_0005260 denotes CFTR
T490 610-614 http://purl.obolibrary.org/obo/GO_0005260 denotes CFTR
T491 659-668 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T492 659-668 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T493 736-745 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T494 736-745 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T495 763-775 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T496 865-874 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T497 865-874 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T498 1367-1382 http://purl.obolibrary.org/obo/GO_0006306 denotes DNA methylation
T499 1371-1382 http://purl.obolibrary.org/obo/GO_0032259 denotes methylation
T500 1584-1593 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T501 1584-1593 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T502 1745-1776 http://purl.obolibrary.org/obo/GO_0010507 denotes negative regulator of autophagy
T503 1767-1776 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T504 1767-1776 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T505 1920-1929 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T506 1920-1929 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T507 1930-1945 http://purl.obolibrary.org/obo/GO_0010467 denotes gene expression
T508 2040-2049 http://purl.obolibrary.org/obo/GO_0016236 denotes autophagy
T509 2040-2049 http://purl.obolibrary.org/obo/GO_0006914 denotes autophagy
T510 2117-2129 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T189 0-4 Sentence denotes 4.5.
T190 5-41 Sentence denotes Autophagy Defects in Cystic Fibrosis
T191 42-247 Sentence denotes Cystic fibrosis is a chronic obstructive lung disease which is marked by recurrent infections, chronic inflammatory-oxidative stress, and mucus overproduction that contributes to severe airway obstruction.
T192 248-436 Sentence denotes Initial seminal studies by Luciani A et al. established the link between defective CFTR and the presence of aggresome bodies, lung inflammation, and ROS-mediated autophagy inhibition [53].
T193 437-810 Sentence denotes We and others have not only validated that defective CFTR-mediated ROS-TG2 pathway drives the crosslinking of Beclin-1, which results in the accumulation of misfolded ΔF508-CFTR into p62+HDAC6+ aggresome bodies leading to autophagy dysfunction, but we have also demonstrated the key central role of autophagy in regulating CF pathogenesis and exacerbations [42,58,149,150].
T194 811-952 Sentence denotes These studies describe the specific role of defective autophagy in CF-related chronic infections and resulting inflammatory-oxidative stress.
T195 953-1178 Sentence denotes In addition, CF macrophages demonstrate impaired phagocytic activity and thus CF patients are more prone to bacterial infections, such as P. aeruginosa and Burkholderia cenocepacia (B. cenocepacia) [45,51,58,106,151,152,153].
T196 1179-1275 Sentence denotes A recent study investigated the precise mechanism of weak autophagic activity in CF macrophages.
T197 1276-1628 Sentence denotes Using the technique of reduced representation bisulfite sequencing (RRBS) to determine the DNA methylation profile, the authors found that the promoter regions of Atg12 in CF macrophages are significantly more methylated as compared to the control WT cells, thereby elucidating a novel mechanism for reduced autophagy activity in CF immune cells [154].
T198 1629-1839 Sentence denotes In a separate study, an increased expression of the microRNA (Mir)c1/Mir17-92 cluster was identified as a potential negative regulator of autophagy in CF macrophages when compared to normal control cells [105].
T199 1840-1997 Sentence denotes Furthermore, the in vivo downregulation of Mir17 and Mir20a, partially restored autophagy gene expression and improved the clearance of B. cenocepacia [105].
T200 1998-2146 Sentence denotes These studies highlight the importance of autophagy as a key protective mechanism in CF exacerbation, and lung disease pathogenesis and progression.