mRNAs expression profiles of high glucose-induced memory in human umbilical vein endothelial cells

References

• Zitman-Gal T , Green J , Pasmanik-Chor M , Golan E , Bernheim J , Benchetrit S . Vitamin D manipulates miR-181c, miR-20b and miR-15a in human umbilical vein endothelial cells exposed to a diabetic-like environment. Cardiovasc Diabetol . 2014;13:8. doi:10.1186/1475-2840-13-80 24397367
   PubMed Web of Science ®Google Scholar
• Lorenzen J , Kumarswamy R , Dangwal S , Thum T . MicroRNAs in diabetes and diabetes-associated complications. RNA Biol . 2012;9(6):820–827. doi:10.4161/rna.20162 22664916
   PubMed Web of Science ®Google Scholar
• Caporali A , Meloni M , Vollenkle C , et al. Deregulation of microRNA-503 contributes to diabetes mellitus-induced impairment of endothelial function and reparative angiogenesis after limb ischemia. Circulation . 2011;123(3):282–291. doi:10.1161/CIRCULATIONAHA.110.952325 21220732
   PubMed Web of Science ®Google Scholar
• Calles-Escandon J , Cipolla M . Diabetes and endothelial dysfunction: a clinical perspective. Endocr Rev . 2001;22(1):36–52. doi:10.1210/edrv.22.1.0417 11159815
   PubMed Web of Science ®Google Scholar
• Shen X , Li Y , Sun G , Guo D , Bai X . miR-181c-3p and −5p promotes high-glucose-induced dysfunction in human umbilical vein endothelial cells by regulating leukemia inhibitory factor. Int J Biol Macromol . 2018;115:509–517. doi:10.1016/j.ijbiomac.2018.03.173 29605252
   PubMed Web of Science ®Google Scholar
• Ceriello A . Postprandial hyperglycemia and diabetes complications: is it time to treat? Diabetes . 2005;54(1):1–7. doi:10.2337/diabetes.54.1.1 15616004
   PubMed Web of Science ®Google Scholar
• Ho FM , Lin WW , Chen BC , et al. High glucose-induced apoptosis in human vascular endothelial cells is mediated through NF-kappaB and c-Jun NH2-terminal kinase pathway and prevented by PI3K/Akt/eNOS pathway. Cell Signal . 2006;18(3):391–399. doi:10.1016/j.cellsig.2005.05.009 15970429
   PubMed Web of Science ®Google Scholar
• Li JY , Huang WQ , Tu RH , Zhong GQ , Luo BB , He Y . Resveratrol rescues hyperglycemia-induced endothelial dysfunction via activation of Akt. Acta Pharmacol Sin . 2017;38(2):182–191. doi:10.1038/aps.2016.109 27941804
   PubMed Web of Science ®Google Scholar
• Liu X , Chen D , Wu Z , et al. Ghrelin inhibits high glucose-induced 16HBE cells apoptosis by regulating Wnt/beta-catenin pathway. Biochem Biophys Res Commun . 2016;477(4):902–907. doi:10.1016/j.bbrc.2016.06.156 27378423
   PubMed Web of Science ®Google Scholar
• Ihnat MA , Thorpe JE , Ceriello A . Hypothesis: the ‘metabolic memory’, the new challenge of diabetes. Diabet Med . 2007;24(6):582–586. doi:10.1111/j.1464-5491.2007.02138.x 17490424
   PubMed Web of Science ®Google Scholar
• Ihnat MA , Thorpe JE , Kamat CD , et al. Reactive oxygen species mediate a cellular ‘memory’ of high glucose stress signalling. Diabetologia . 2007;50(7):1523–1531. doi:10.1007/s00125-007-0684-2 17508197
   PubMed Web of Science ®Google Scholar
• Zhang E , Guo Q , Gao H , Xu R , Teng S , Wu Y . Metformin and resveratrol inhibited high glucose-induced metabolic memory of endothelial senescence through SIRT1/p300/p53/p21 pathway. PLoS One . 2015;10(12):e0143814. doi:10.1371/journal.pone.0143814 26629991
   PubMed Web of Science ®Google Scholar
• Paneni F , Mocharla P , Akhmedov A , et al. Gene silencing of the mitochondrial adaptor p66(Shc) suppresses vascular hyperglycemic memory in diabetes. Circ Res . 2012;111(3):278–289. doi:10.1161/CIRCRESAHA.112.266593 22693349
   PubMed Web of Science ®Google Scholar
• Singh KK , Mantella LE , Pan Y , et al. A global profile of glucose-sensitive endothelial-expressed long non-coding RNAs. Can J Physiol Pharmacol . 2016;94(9):1007–1014. doi:10.1139/cjpp-2015-0585 27434139
   PubMed Web of Science ®Google Scholar
• Kim D , Langmead B , Salzberg SL . HISAT: a fast spliced aligner with low memory requirements. Nat Methods . 2015;12(4):357–360. doi:10.1038/nmeth.3317 25751142
   PubMed Web of Science ®Google Scholar
• Pertea M , Kim D , Pertea GM , Leek JT , Salzberg SL . Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown. Nat Protoc . 2016;11(9):1650–1667. doi:10.1038/nprot.2016.095 27560171
   PubMed Web of Science ®Google Scholar
• Pertea M , Pertea GM , Antonescu CM , Chang TC , Mendell JT , Salzberg SL . StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol . 2015;33(3):290–295. doi:10.1038/nbt.3122 25690850
   PubMed Web of Science ®Google Scholar
• Robinson MD , Oshlack A . A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol . 2010;11(3):R25. doi:10.1186/gb-2010-11-11-r110 20196867
   PubMed Web of Science ®Google Scholar
• Mortazavi A , Williams BA , McCue K , Schaeffer L , Wold B . Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods . 2008;5(7):621–628. doi:10.1038/nmeth.1226 18516045
   PubMed Web of Science ®Google Scholar
• Nikolayeva O , Robinson MD . edgeR for differential RNA-seq and ChIP-seq analysis: an application to stem cell biology. Methods Mol Biol . 2014;1150:45–79. doi:10.1007/978-1-4939-0512-6_3 24743990
   PubMedGoogle Scholar
• Robinson MD , McCarthy DJ , Smyth GK . edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics . 2010;26(1):139–140. doi:10.1093/bioinformatics/btp616 19910308
   PubMed Web of Science ®Google Scholar
• Sircar S , Parekh N . Meta-analysis of drought-tolerant genotypes in Oryza sativa: a network-based approach. PLoS One . 2019;14(5):e0216068.31059518
   PubMed Web of Science ®Google Scholar
• Khatri B , Seo D , Shouse S , et al. MicroRNA profiling associated with muscle growth in modern broilers compared to an unselected chicken breed. BMC Genomics . 2018;19(1):683. doi:10.1186/s12864-018-5061-7 30223794
   PubMed Web of Science ®Google Scholar
• Wu X , Xie S , Wang L , Fan P , Ge S . A computational strategy for finding novel targets and therapeutic compounds for opioid dependence. PLoS One . 2018;13(11):e0207027.30403753
   PubMed Web of Science ®Google Scholar
• Yu G , Wang LG , Han Y , He QY . ClusterProfiler: an R package for comparing biological themes among gene clusters. OMICS . 2012;16(5):284–287. doi:10.1089/omi.2011.0118 22455463
   PubMed Web of Science ®Google Scholar
• Ashburner M , Ball CA , Blake JA , et al. Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat Genet . 2000;25(1):25–29. doi:10.1038/75556 10802651
   PubMed Web of Science ®Google Scholar
• Franceschini A , Szklarczyk D , Frankild S , et al. STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res . 2013;41(Databaseissue):D808–D815. doi:10.1093/nar/gks1094 23203871
   PubMed Web of Science ®Google Scholar
• Shannon P , Markiel A , Ozier O , et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res . 2003;13(11):2498–2504. doi:10.1101/gr.1239303 14597658
   PubMed Web of Science ®Google Scholar
• Bader GD , Hogue CW . An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics . 2003;4:2.12525261
   PubMed Web of Science ®Google Scholar
• Testa R , Bonfigli AR , Prattichizzo F , La Sala L , De Nigris V , Ceriello A . The “Metabolic memory” theory and the early treatment of hyperglycemia in prevention of diabetic complications. Nutrients . 2017;9(5). doi:10.3390/nu9050437
   Web of Science ®Google Scholar
• Wang Z , Zhao H , Guan W , Kang X , Tai X , Shen Y . Metabolic memory in mitochondrial oxidative damage triggers diabetic retinopathy. BMC Ophthalmol . 2018;18(1):258. doi:10.1186/s12886-018-0921-0 30249212
   PubMed Web of Science ®Google Scholar
• De Nigris V , Prattichizzo F , Mancuso E , Spiga R , Pujadas G , Ceriello A . Teneligliptin enhances the beneficial effects of GLP-1 in endothelial cells exposed to hyperglycemic conditions. Oncotarget . 2018;9(10):8898–8910. doi:10.18632/oncotarget.22849 29507662
   PubMedGoogle Scholar
• Pujadas G , De Nigris V , Prattichizzo F , La Sala L , Testa R , Ceriello A . The dipeptidyl peptidase-4 (DPP-4) inhibitor teneligliptin functions as antioxidant on human endothelial cells exposed to chronic hyperglycemia and metabolic high-glucose memory. Endocrine . 2017;56(3):509–520. doi:10.1007/s12020-016-1052-0 27530507
   PubMed Web of Science ®Google Scholar
• Terrano DT , Upreti M , Chambers TC . Cyclin-dependent kinase 1-mediated Bcl-xL/Bcl-2 phosphorylation acts as a functional link coupling mitotic arrest and apoptosis. Mol Cell Biol . 2010;30(3):640–656. doi:10.1128/MCB.00882-09 19917720
   PubMed Web of Science ®Google Scholar
• Harley ME , Allan LA , Sanderson HS , Clarke PR . Phosphorylation of Mcl-1 by CDK1-cyclin B1 initiates its Cdc20-dependent destruction during mitotic arrest. Embo J . 2010;29(14):2407–2420. doi:10.1038/emboj.2010.112 20526282
   PubMed Web of Science ®Google Scholar
• Cai X , Hu Y , Tang H , et al. RNA methyltransferase NSUN2 promotes stress-induced HUVEC senescence. Oncotarget . 2016;7(15):19099–19110. doi:10.18632/oncotarget.8087 26992231
   PubMedGoogle Scholar
• Guo D , Xiao L , Hu H , Liu M , Yang L , Lin X . FGF21 protects human umbilical vein endothelial cells against high glucose-induced apoptosis via PI3K/Akt/Fox3a signaling pathway. J Diabetes Complications . 2018;32(8):729–736. doi:10.1016/j.jdiacomp.2018.05.012 29907326
   PubMed Web of Science ®Google Scholar
• Usuki S , Tsai YY , Morikawa K , et al. IGF-1 induction by acylated steryl beta-glucosides found in a pre-germinated brown rice diet reduces oxidative stress in streptozotocin-induced diabetes. PLoS One . 2011;6(12):e28693. doi:10.1371/journal.pone.0028693 22194889
   PubMed Web of Science ®Google Scholar
• Chang Y , Chang TC , Lee JJ , et al. Sanguis draconis, a dragon’s blood resin, attenuates high glucose-induced oxidative stress and endothelial dysfunction in human umbilical vein endothelial cells. TheScientificWorldJournal . 2014;2014:423259. doi:10.1155/2014/423259
   Web of Science ®Google Scholar
• Zhou DY , Su Y , Gao P , Yang QH , Wang Z , Xu Q . Resveratrol ameliorates high glucose-induced oxidative stress injury in human umbilical vein endothelial cells by activating AMPK. Life Sci . 2015;136:94–99. doi:10.1016/j.lfs.2015.07.008 26188290
   PubMed Web of Science ®Google Scholar