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PMC:7736111 / 17586-22440 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
500 279-285 Gene denotes TRIM25 Gene:7706
501 320-325 Gene denotes RIG-I Gene:23586
502 378-384 Gene denotes TRIM25 Gene:7706
503 427-432 Gene denotes RIG-I Gene:23586
504 477-482 Gene denotes RIG-I Gene:23586
505 544-549 Gene denotes IFN-β Gene:3439
506 607-610 Gene denotes IFN Gene:3439
507 650-654 Gene denotes IRF3 Gene:3661
508 826-830 Gene denotes IRF3 Gene:3661
509 831-835 Gene denotes IRF7 Gene:3665
510 866-871 Gene denotes RIG-I Gene:23586
511 873-877 Gene denotes TBK1 Gene:29110
512 879-883 Gene denotes IKKε Gene:9641
513 889-894 Gene denotes TRAF3 Gene:7187
514 987-991 Gene denotes Nsp1 Gene:10045
515 1001-1006 Gene denotes IFN-β Gene:3439
516 1029-1034 Gene denotes STAT1 Gene:6772
517 1258-1263 Gene denotes TRAF3 Gene:7187
518 1265-1269 Gene denotes TBK1 Gene:29110
519 1271-1275 Gene denotes IKKε Gene:9641
520 1277-1282 Gene denotes STING Gene:340061
521 1288-1292 Gene denotes IRF3 Gene:3661
522 1323-1327 Gene denotes IRF3 Gene:3661
523 1328-1332 Gene denotes IRF7 Gene:3665
524 1411-1415 Gene denotes IRF3 Gene:3661
525 1481-1485 Gene denotes ORF6 Gene:43740572
526 1544-1548 Gene denotes IRF3 Gene:3661
527 1758-1783 Gene denotes dynamin-related protein 1 Gene:10059
528 1785-1789 Gene denotes Drp1 Gene:10059
529 1846-1850 Gene denotes MAVS Gene:57506
530 1938-1943 Gene denotes PCBP2 Gene:5094
531 1948-1952 Gene denotes AIP4 Gene:83737
532 1987-1991 Gene denotes MAVS Gene:57506
533 2047-2052 Gene denotes IFN-β Gene:3439
534 88-96 Species denotes SARS-CoV Tax:694009
535 353-361 Species denotes SARS-CoV Tax:694009
536 2155-2163 Species denotes SARS-CoV Tax:694009
537 2176-2179 Gene denotes IFN Gene:3439
557 2379-2382 Gene denotes IFN Gene:3439
558 2651-2656 Gene denotes ORF3a Gene:43740569
559 2729-2732 Gene denotes IFN Gene:3439
560 2747-2752 Gene denotes NF-κB Gene:4790
561 2773-2777 Gene denotes Nsp5 Gene:92521
562 2794-2799 Gene denotes HDAC2 Gene:3066
563 2844-2847 Gene denotes IFN Gene:3439
564 3137-3141 Gene denotes ORF6 Gene:43740572
565 3237-3242 Gene denotes IFN-β Gene:3439
566 3247-3252 Gene denotes NF-κB Gene:4790
567 3333-3337 Gene denotes ORF6 Gene:43740572
568 3419-3424 Gene denotes NUP98 Gene:4928
569 3425-3429 Gene denotes RAE1 Gene:8480
570 3508-3511 Gene denotes IFN Gene:3439
571 2296-2306 Species denotes SARS-CoV-2 Tax:2697049
572 2464-2474 Species denotes SARS-CoV-2 Tax:2697049
573 2540-2550 Species denotes SARS-CoV-2 Tax:2697049
574 3306-3309 Gene denotes IFN Gene:3439
575 3191-3197 CellLine denotes HEK293 CVCL:0045
586 3610-3613 Gene denotes IFN Gene:3439
587 3988-3992 Gene denotes MDA5 Gene:64135
588 4227-4230 Gene denotes PKR Gene:5610
589 4283-4284 Gene denotes N Gene:43740575
590 3889-3900 Gene denotes ribose 2′-O
591 3634-3642 Species denotes SARS-CoV Tax:694009
592 3864-3872 Species denotes SARS-CoV Tax:694009
593 4129-4137 Species denotes SARS-CoV Tax:694009
594 4296-4306 Species denotes SARS-CoV-2 Tax:2697049
595 4445-4462 Disease denotes SARS-CoV infected MESH:C000657245

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T97 0-67 Sentence denotes Interference With the Nucleic Acid Sensing and Downstream Signaling
T98 68-256 Sentence denotes Previous studies on SARS-CoV revealed smart strategies to inhibit multiple steps in the NAS pathway and downstream signaling (Rose et al., 2010; Adedeji et al., 2013; Chan and Gack, 2016).
T99 257-326 Sentence denotes As mentioned earlier, TRIM25 mediated ubiquitination activates RIG-I.
T100 327-454 Sentence denotes Whereas, the N protein of SARS-CoV, which binds to TRIM25 and thereby prevents its association with RIG-I and hence activation.
T101 455-579 Sentence denotes The ubiquitin usurped RIG-I is unable to mount the antiviral response, thereby disabling IFN-β production (Hu et al., 2017).
T102 580-795 Sentence denotes N protein also antagonizes IFN signaling by directly interacting with IRF3, thereby inhibiting its phosphorylation and subsequent nuclear translocation (Kopecky-Bromberg et al., 2006; Kopecky-Bromberg et al., 2007).
T103 796-943 Sentence denotes Similarly, M protein inhibits IRF3/IRF7 signaling by interfering with RIG-I, TBK1, IKKε, and TRAF3 activation complex formation (Siu et al., 2009).
T104 944-1172 Sentence denotes Acting at multiple pathways on host cells, Nsp1 inhibits IFN-β promoter activity and STAT1 phosphorylation which led to a decrease in the expression of various antiviral interferon-stimulated genes (ISGs; Wathelet et al., 2007).
T105 1173-1343 Sentence denotes Chen et al. (2014) showed that papain-like protease (PLpro) directly associates with TRAF3, TBK1, IKKε, STING, and IRF3 and hence inhibits downstream IRF3/IRF7 signaling.
T106 1344-1473 Sentence denotes In another study, Devaraj et al. (2007) showed that PLpro inhibits IRF3 phosphorylation and its subsequent nuclear translocation.
T107 1474-1679 Sentence denotes ORF3b, ORF6, ORF8a, and ORF8b also play prominent roles in inhibiting IRF3 phosphorylation and its subsequent nuclear translocation (Kopecky-Bromberg et al., 2006; Freundt et al., 2010; Wong et al., 2018).
T108 1680-1869 Sentence denotes ORF9b was shown to be associated with mitochondria and induced degradation of dynamin-related protein 1 (Drp1), thus altering mitochondrial function and sequestering MAVS into small puncta.
T109 1870-2083 Sentence denotes Further, ORF9b was associated with recruitment of ubiquitin ligases PCBP2 and AIP4 E3 which led to ubiquitination of MAVS and eventually its degradation, as a result inhibiting IFN-β production (Shi et al., 2014).
T110 2084-2238 Sentence denotes Thus, by associating with multiple proteins involved in NAS signaling, SARS-CoV antagonizes IFN signaling and synthesis of protective molecules like ISGs.
T111 2239-2393 Sentence denotes Recent studies have also demonstrated the interaction of SARS-CoV-2 proteins with multiple host cell NAS signaling molecules and downstream IFN signaling.
T112 2394-2518 Sentence denotes An extensive proteomic study by Gordon et al. (2020), showed multiple SARS-CoV-2 protein and host cell protein interactions.
T113 2519-2617 Sentence denotes A proteome map of 26 SARS-CoV-2 proteins predicted 332 viral proteins interacting with host cells.
T114 2618-2761 Sentence denotes Among these, Nsp9, Nsp13, Nsp15, ORF3a, ORF9b, and ORF9c interacted with proteins in downstream NAS signaling, IFN response, and NF-κB pathway.
T115 2762-2977 Sentence denotes Similarly, Nsp5 interacted with HDAC2, which may be thus involved in limiting the IFN signaling and inflammatory response, but the specific functional role of these proteins was not determined (Gordon et al., 2020).
T116 2978-3072 Sentence denotes In two recent studies, the functional relevance of some of these proteins was tested in vitro.
T117 3073-3263 Sentence denotes In the first study, Li J.Y. et al. (2020) tested the effects of ORF6, ORF8 and N protein on the antiviral response in HEK293 cells and found these proteins inhibit IFN-β and NF-κB signaling.
T118 3264-3431 Sentence denotes Similarly, Yuen et al. (2020) showed that IFN antagonizing effect of ORF6 was due to its association with the interferon-inducible nuclear export complex (NUP98–RAE1).
T119 3432-3577 Sentence denotes The study further showed that Nsp13, Nsp14, and Nsp15 could also antagonize IFN response, but the mechanism was not explored (Yuen et al., 2020).
T120 3578-3710 Sentence denotes In addition to interfering with IFN production pathway, SARS-CoV has evolved multiple other mechanisms to modify host cell response.
T121 3711-3860 Sentence denotes Viral RNA is unprotected and open to cellular degradation; however, some RNA viruses have evolved a capping process to evade recognition by the host.
T122 3861-4013 Sentence denotes In SARS-CoV, Nsp16 provides ribose 2′-O-methylation at the 5′ end of the RNA to protect its degradation and prevent sensing by MDA5 (Züst et al., 2011).
T123 4014-4122 Sentence denotes Similarly, Nsp14 had N7 methyltransferase activity and methylated the 5′ end of the RNA (Chen et al., 2009).
T124 4123-4282 Sentence denotes Other SARS-CoV proteins involved include – Nsp4a, which prevents stress granule formation by inhibiting PKR mediated antiviral signaling (Rabouw et al., 2016).
T125 4283-4413 Sentence denotes N protein of SARS-CoV-2 is also known to interact with the proteins implicated in stress granule regulation (Gordon et al., 2020).
T126 4414-4647 Sentence denotes Electron tomography studies in SARS-CoV infected cells revealed a unique replication network derived from ER to organize viral replication while simultaneously hiding the viral RNA from recognition by host NASs (Knoops et al., 2008).
T127 4648-4854 Sentence denotes Other RNA viruses have also developed similar strategies to evade sensing by forming double-membrane vesicles (DMVs) and replication organelles to prevent access to the NASs (Blanchard and Roingeard, 2015).