Identification and Validation of Dilated Cardiomyopathy-Related Genes via Bioinformatics Analysis

References

• Kayvanpour E, Sedaghat-Hamedani F, Amr A, et al. Genotype-phenotype associations in dilated cardiomyopathy: meta-analysis on more than 8000 individuals. Clin Res Cardiol. 2017;106:127–139. doi:10.1007/s00392-016-1033-6
   PubMed Web of Science ®Google Scholar
• Mestroni L, Maisch B, McKenna WJ, et al. Guidelines for the study of familial dilated cardiomyopathies. Collaborative Research Group of the European human and capital mobility project on familial dilated cardiomyopathy. Eur Heart J. 1999;20:93–102. doi:10.1053/euhj.1998.1145
   PubMed Web of Science ®Google Scholar
• Hershberger RE, Cowan J, Morales A, et al. Progress with genetic cardiomyopathies: screening, counseling, and testing in dilated, hypertrophic, and arrhythmogenic right ventricular dysplasia/cardiomyopathy. Circ Heart Fail. 2009;2:253–261. doi:10.1161/circheartfailure.108.817346
   PubMed Web of Science ®Google Scholar
• Hunt SA, Abraham WT, Chin MH, et al. Focused update incorporated into the ACC/AHA 2005 guidelines for the diagnosis and management of heart failure in adults a report of the American College of Cardiology Foundation/American Heart Association task force on practice guidelines developed in collaboration with the international society for heart and lung transplantation. J Am Coll Cardiol. 2009;53:e1–e90. doi:10.1016/j.jacc.2008.11.013
   PubMed Web of Science ®Google Scholar
• Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004;116:281–297. doi:10.1016/s0092-8674(04)00045-5
   PubMed Web of Science ®Google Scholar
• van Rooij E, Sutherland LB, Liu N, et al. A signature pattern of stress-responsive microRNAs that can evoke cardiac hypertrophy and heart failure. Proc Natl Acad Sci U S A. 2006;103:18255–18260. doi:10.1073/pnas.0608791103
   PubMed Web of Science ®Google Scholar
• Cordes KR, Srivastava D. MicroRNA regulation of cardiovascular development. Circ Res. 2009;104:724–732. doi:10.1161/circresaha.108.192872
   PubMed Web of Science ®Google Scholar
• van Rooij E, Olson EN. Searching for miR-acles in cardiac fibrosis. Circ Res. 2009;104:138–140. doi:10.1161/circresaha.108.192492
   PubMed Web of Science ®Google Scholar
• Latronico MV, Condorelli G. MicroRNAs and cardiac pathology. Nat Rev Cardiol. 2009;6:419–429. doi:10.1038/nrcardio.2009.56
   PubMed Web of Science ®Google Scholar
• Rubiś P, Totoń-żurańska J, Wiśniowska-śmiałek S, et al. The relationship between myocardial fibrosis and myocardial microRNAs in dilated cardiomyopathy: a link between mir-133a and cardiovascular events. J Cell Mol Med. 2018;22:2514–2517. doi:10.1111/jcmm.13535
   PubMed Web of Science ®Google Scholar
• Hirai K, Ousaka D, Fukushima Y, et al. Cardiosphere-derived exosomal microRNAs for myocardial repair in pediatric dilated cardiomyopathy. Sci Transl Med. 2020;12. doi:10.1126/scitranslmed.abb3336
   PubMed Web of Science ®Google Scholar
• Filipowicz W, Bhattacharyya SN, Sonenberg N. Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? Nat Rev Genet. 2008;9:102–114. doi:10.1038/nrg2290
   PubMed Web of Science ®Google Scholar
• Brennecke J, Stark A, Russell RB, et al. Principles of microRNA-target recognition. PLoS Biol. 2005;3:e85. doi:10.1371/journal.pbio.0030085
   PubMed Web of Science ®Google Scholar
• Ritchie ME, Phipson B, Wu D, et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res. 2015;43:e47. doi:10.1093/nar/gkv007
   PubMed Web of Science ®Google Scholar
• Gu Z, Eils R, Schlesner M. Complex heatmaps reveal patterns and correlations in multidimensional genomic data. Bioinformatics. 2016;32:2847–2849. doi:10.1093/bioinformatics/btw313
   PubMed Web of Science ®Google Scholar
• Dweep H, Gretz N. miRWalk2.0: a comprehensive atlas of microRNA-target interactions. Nat Methods. 2015;12:697. doi:10.1038/nmeth.3485
   PubMed Web of Science ®Google Scholar
• Chen C, Jiang L, Zhang M, et al. Isodunnianol alleviates doxorubicin-induced myocardial injury by activating protective autophagy. Food Funct. 2019;10:2651–2657. doi:10.1039/c9fo00063a
   PubMed Web of Science ®Google Scholar
• Ivandic BT, Mastitsky SE, Schönsiegel F, et al. Whole-genome analysis of gene expression associates the ubiquitin-proteasome system with the cardiomyopathy phenotype in disease-sensitized congenic mouse strains. Cardiovasc Res. 2012;94:87–95. doi:10.1093/cvr/cvs080
   PubMed Web of Science ®Google Scholar
• Ceylan H. Identification of hub genes associated with obesity-induced hepatocellular carcinoma risk based on integrated bioinformatics analysis. Med Oncol. 2021;38:63. doi:10.1007/s12032-021-01510-0
   PubMed Web of Science ®Google Scholar
• Ceylan H. Integrated bioinformatics analysis to identify alternative therapeutic targets for alzheimer’s disease: insights from a synaptic machinery perspective. J Mol Neurosci. 2021. doi:10.1007/s12031-021-01893-9
   PubMed Web of Science ®Google Scholar
• Barth AS, Kuner R, Buness A, et al. Identification of a common gene expression signature in dilated cardiomyopathy across independent microarray studies. J Am Coll Cardiol. 2006;48:1610–1617. doi:10.1016/j.jacc.2006.07.026
   PubMed Web of Science ®Google Scholar
• Rupaimoole R, Slack FJ. MicroRNA therapeutics: towards a new era for the management of cancer and other diseases. Nat Rev Drug Discov. 2017;16:203–222. doi:10.1038/nrd.2016.246
   PubMed Web of Science ®Google Scholar
• Vegter EL, van der Meer P, de Windt LJ, et al. MicroRNAs in heart failure: from biomarker to target for therapy. Eur J Heart Fail. 2016;18:457–468. doi:10.1002/ejhf.495
   PubMed Web of Science ®Google Scholar
• Zhou SS, Jin JP, Wang JQ, et al. miRNAS in cardiovascular diseases: potential biomarkers, therapeutic targets and challenges. Acta Pharmacol Sin. 2018;39:1073–1084. doi:10.1038/aps.2018.30
   PubMed Web of Science ®Google Scholar
• Barwari T, Joshi A, Mayr M. MicroRNAs in cardiovascular disease. J Am Coll Cardiol. 2016;68:2577–2584. doi:10.1016/j.jacc.2016.09.945
   PubMed Web of Science ®Google Scholar
• Simion V, Nadim WD, Benedetti H, et al. Pharmacomodulation of microRNA Expression in neurocognitive diseases: obstacles and future opportunities. Curr Neuropharmacol. 2017;15:276–290. doi:10.2174/1570159x14666160630210422
   PubMed Web of Science ®Google Scholar
• Liu T, Zhang Q, Zhang J, et al. EVmiRNA: a database of miRNA profiling in extracellular vesicles. Nucleic Acids Res. 2019;47:D89–d93. doi:10.1093/nar/gky985
   PubMed Web of Science ®Google Scholar
• Baskara-Yhuellou I, Tost J. The impact of microRNAs on alterations of gene regulatory networks in allergic diseases. Adv Protein Chem Struct Biol. 2020;120:237–312. doi:10.1016/bs.apcsb.2019.11.006
   PubMed Web of Science ®Google Scholar
• Kim MH, Cho JS, Kim Y, et al. Discriminating between terminal- and non-terminal respiratory unit-type lung adenocarcinoma based on MicroRNA profiles. PLoS One. 2016;11:e0160996. doi:10.1371/journal.pone.0160996
   PubMed Web of Science ®Google Scholar
• Han B, Feng D, Yu X, et al. Identification and interaction analysis of molecular markers in colorectal cancer by integrated bioinformatics analysis. Med Sci Monit. 2018;24:6059–6069. doi:10.12659/msm.910106
   PubMed Web of Science ®Google Scholar
• Feng Y, Xu W, Zhang W, et al. LncRNA DCRF regulates cardiomyocyte autophagy by targeting miR-551b-5p in diabetic cardiomyopathy. Theranostics. 2019;9:4558–4566. doi:10.7150/thno.31052
   PubMed Web of Science ®Google Scholar
• Bai SY, Ji R, Wei H, et al. Serum miR-551b-3p is a potential diagnostic biomarker for gastric cancer. Turk J Gastroenterol. 2019;30:415–419. doi:10.5152/tjg.2019.17875
   PubMed Web of Science ®Google Scholar
• Yuan H, Chen Z, Bai S, et al. Molecular mechanisms of lncRNA SMARCC2/miR-551b-3p/TMPRSS4 axis in gastric cancer. Cancer Lett. 2018;418:84–96. doi:10.1016/j.canlet.2018.01.032
   PubMed Web of Science ®Google Scholar
• Chang W, Wang Y, Li W, et al. MicroRNA-551b-3p inhibits tumour growth of human cholangiocarcinoma by targeting Cyclin D1. J Cell Mol Med. 2019;23:4945–4954. doi:10.1111/jcmm.14312
   PubMed Web of Science ®Google Scholar
• Zhou T, Li S, Yang L, et al. microRNA-363-3p reduces endothelial cell inflammatory responses in coronary heart disease via inactivation of the NOX4-dependent p38 MAPK axis. Aging. 2021;13:11061–11082. doi:10.18632/aging.202721
   PubMedGoogle Scholar
• Wang K, Yan L, Lu F. miR-363-3p inhibits osteosarcoma cell proliferation and invasion via targeting SOX4. Oncol Res. 2019;27:157–163. doi:10.3727/096504018x15190861873459
   PubMed Web of Science ®Google Scholar
• Wang J, Tang Q, Lu L, et al. LncRNA OIP5-AS1 interacts with miR-363-3p to contribute to hepatocellular carcinoma progression through up-regulation of SOX4. Gene Ther. 2019;27:495–504. doi:10.1038/s41434-020-0123-2
   PubMed Web of Science ®Google Scholar
• Liu J, Li Q, Li R, et al. MicroRNA-363-3p inhibits papillary thyroid carcinoma progression by targeting PIK3CA. Am J Cancer Res. 2017;7:148–158.
   PubMed Web of Science ®Google Scholar
• Satake E, Pezzolesi MG, Md Dom ZI, et al. Circulating miRNA profiles associated with hyperglycemia in patients with Type 1 diabetes. Diabetes. 2018;67:1013–1023. doi:10.2337/db17-1207
   PubMed Web of Science ®Google Scholar
• Lee HC, Her NG, Kang D, et al. Radiation-inducible miR-770-5p sensitizes tumors to radiation through direct targeting of PDZ-binding kinase. Cell Death Dis. 2017;8:e2693. doi:10.1038/cddis.2017.116
   PubMed Web of Science ®Google Scholar
• Chu PY, Joshi MS, Horlock D, et al. CXCR4 antagonism reduces cardiac fibrosis and improves cardiac performance in dilated cardiomyopathy. Front Pharmacol. 2019;10:117. doi:10.3389/fphar.2019.00117
   PubMed Web of Science ®Google Scholar
• Damås JK, Eiken HG, Oie E, et al. Myocardial expression of CC- and CXC-chemokines and their receptors in human end-stage heart failure. Cardiovasc Res. 2000;47:778–787. doi:10.1016/s0008-6363(00)00142-5
   PubMed Web of Science ®Google Scholar
• Beji S, Milano G, Scopece A, et al. Doxorubicin upregulates CXCR4 via miR-200c/ZEB1-dependent mechanism in human cardiac mesenchymal progenitor cells. Cell Death Dis. 2017;8:e3020. doi:10.1038/cddis.2017.409
   PubMed Web of Science ®Google Scholar
• Du F, Sun L, Chu Y, et al. DDIT4 promotes gastric cancer proliferation and tumorigenesis through the p53 and MAPK pathways. Cancer Commun. 2018;38:45. doi:10.1186/s40880-018-0315-y
   PubMed Web of Science ®Google Scholar
• Cheng Z, Dai Y, Pang Y, et al. Up-regulation of DDIT4 predicts poor prognosis in acute myeloid leukaemia. J Cell Mol Med. 2020;24:1067–1075. doi:10.1111/jcmm.14831
   PubMed Web of Science ®Google Scholar
• Nishi M, Ogata T, Cannistraci CV, et al. Systems network genomic analysis reveals cardioprotective effect of MURC/Cavin-4 deletion against ischemia/reperfusion injury. J Am Heart Assoc. 2019;8:e012047. doi:10.1161/jaha.119.012047
   PubMed Web of Science ®Google Scholar
• Eltzschig HK, Eckle T. Ischemia and reperfusion–from mechanism to translation. Nat Med. 2011;17:1391–1401. doi:10.1038/nm.2507
   PubMed Web of Science ®Google Scholar
• Knowles LM, Yang C, Osterman A, et al. Inhibition of fatty-acid synthase induces caspase-8-mediated tumor cell apoptosis by up-regulating DDIT4. J Biol Chem. 2008;283:31378–31384. doi:10.1074/jbc.M803384200
   PubMed Web of Science ®Google Scholar
• Li Z, Zhao Q, Lu Y, et al. DDIT4 S-Nitrosylation aids p38-MAPK signaling complex assembly to promote hepatic reactive oxygen species production. Adv Sci. 2021;8:e2101957. doi:10.1002/advs.202101957
   Web of Science ®Google Scholar
• Huang X, Li Z, Zhang Q, et al. Circular RNA AKT3 upregulates PIK3R1 to enhance cisplatin resistance in gastric cancer via miR-198 suppression. Mol Cancer. 2019;18:71. doi:10.1186/s12943-019-0969-3
   PubMed Web of Science ®Google Scholar
• Kong Y, Li Y, Luo Y, et al. circNFIB1 inhibits lymphangiogenesis and lymphatic metastasis via the miR-486-5p/PIK3R1/VEGF-C axis in pancreatic cancer. Mol Cancer. 2020;19:82. doi:10.1186/s12943-020-01205-6
   PubMed Web of Science ®Google Scholar
• Kim S, Lee E, Jung J, et al. microRNA-155 positively regulates glucose metabolism via PIK3R1-FOXO3a-cMYC axis in breast cancer. Oncogene. 2018;37:2982–2991. doi:10.1038/s41388-018-0124-4
   PubMed Web of Science ®Google Scholar
• Miao L, Yin RX, Zhang QH, et al. Integrated DNA methylation and gene expression analysis in the pathogenesis of coronary artery disease. Aging. 2019;11:1486–1500. doi:10.18632/aging.101847
   PubMedGoogle Scholar
• Yan LX, Liu YH, Xiang JW, et al. PIK3R1 targeting by miR-21 suppresses tumor cell migration and invasion by reducing PI3K/AKT signaling and reversing EMT, and predicts clinical outcome of breast cancer. Int J Oncol. 2016;48:471–484. doi:10.3892/ijo.2015.3287
   PubMed Web of Science ®Google Scholar
• Huang K, Wen S, Huang J, et al. Integrated analysis of hub genes and miRNAs in dilated cardiomyopathy. Biomed Res Int. 2020;2020:8925420. doi:10.1155/2020/8925420
   PubMed Web of Science ®Google Scholar