Bioinformatics-based identification of potential microRNA biomarkers in frequent and non-frequent exacerbators of COPD

References

• Global Strategy for the Diagnosis, Management and Prevention of COPD, Global Initiative for Chronic Obstructive Lung Diseases (GOLD) 2016 Available from: http://goldcopd.org/Accessed Octobor 20, 2017
   Google Scholar
• LozanoRNaghaviMForemanKGlobal and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study 2010Lancet201238098592095212823245604
   PubMed Web of Science ®Google Scholar
• PereraPNArmstrongEPSherrillDLSkrepnekGHAcute exacerbations of COPD in the United States: inpatient burden and predictors of costs and mortalityCOPD20129213114122409371
   PubMedGoogle Scholar
• JohannesdottirSAChristiansenCFJohansenMBHospitalization with acute exacerbation of chronic obstructive pulmonary disease and associated health resource utilization: a population-based Danish cohort studyJ Med Econ201316789790623621504
   PubMedGoogle Scholar
• de Miguel-DiezJJimenez-GarciaRHernandez-BarreraVTrends in hospital admissions for acute exacerbation of COPD in Spain from 2006 to 2010Respir Med2013107571772323421969
   PubMed Web of Science ®Google Scholar
• BartelDPMicroRNAs: genomics, biogenesis, mechanism, and functionCell2004116228129714744438
   PubMed Web of Science ®Google Scholar
• FujitaYArayaJItoSSuppression of autophagy by extracellular vesicles promotes myofibroblast differentiation in COPD pathogenesisJ Extracell Vesicles201542838826563733
   PubMed Web of Science ®Google Scholar
• OseiETFlorez-SampedroLTasenaHmiR-146a-5p plays an essential role in the aberrant epithelial-fibroblast cross-talk in COPDEur Respir J2017495160253828546273
   PubMedGoogle Scholar
• AkbasFCoskunpinarEAynaciEOltuluYMYildizPAnalysis of serum micro-RNAs as potential biomarker in chronic obstructive pulmonary diseaseExp Lung Res201238628629422686440
   PubMed Web of Science ®Google Scholar
• XieLWuMLinHAn increased ratio of serum miR-21 to miR-181a levels is associated with the early pathogenic process of chronic obstructive pulmonary disease in asymptomatic heavy smokersMol Biosyst20141051072108124556821
   PubMedGoogle Scholar
• WangMHuangYLiangZPlasma miRNAs might be promising biomarkers of chronic obstructive pulmonary diseaseClin Respir J201610110411125102970
   PubMed Web of Science ®Google Scholar
• WangYXueDLiYThe long noncoding RNA MALAT-1 is a novel biomarker in various cancers: a meta-analysis based on the GEO database and literatureJ Cancer201678991100127313790
   PubMed Web of Science ®Google Scholar
• HuangYZhuJLiWSerum microRNA panel excavated by machine learning as a potential biomarker for the detection of gastric cancerOncol Rep20183931338134629286167
   PubMed Web of Science ®Google Scholar
• HuTXiJIdentification of COX5B as a novel biomarker in high-grade glioma patientsOnco Targets Ther2017105463547029180880
   PubMed Web of Science ®Google Scholar
• TianXZhuXYanTDifferentially expressed lncRNAs in gastric cancer patients: a potential biomarker for gastric cancer prognosisJ Cancer20178132575258628900495
   PubMed Web of Science ®Google Scholar
• ManchiaMPirasISHuentelmanMJPattern of gene expression in different stages of schizophrenia: down-regulation of NPTX2 gene revealed by a meta-analysis of microarray datasetsEur Neuropsychopharmacol201727101054106328732597
   PubMed Web of Science ®Google Scholar
• BarrettTSuzekTOTroupDBNCBI GEO: mining millions of expression profiles–database and toolsNucleic Acids Res200533 Database issueD562D52615608262
   PubMed Web of Science ®Google Scholar
• BarrettTWilhiteSELedouxPNCBI GEO: archive for functional genomics data sets–updateNucleic Acids Res201341 Database issueD991D99523193258
   PubMed Web of Science ®Google Scholar
• KrekAGrünDPoyMNCombinatorial microRNA target predictionsNat Genet200537549550015806104
   PubMed Web of Science ®Google Scholar
• WangXImproving microRNA target prediction by modeling with unambiguously identified microRNA-target pairs from CLIP-ligation studiesBioinformatics20163291316132226743510
   PubMed Web of Science ®Google Scholar
• AgarwalVBellGWNamJWBartelDPPredicting effective microRNA target sites in mammalian mRNAsElife20154e05005
   PubMed Web of Science ®Google Scholar
• VlachosISParaskevopoulouMDKaragkouniDDIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA:mRNA interactionsNucleic Acids Res201543 Database issueD153D15925416803
   PubMed Web of Science ®Google Scholar
• Nogales-CadenasRCarmona-SaezPVazquezMGeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological informationNucleic Acids Res200937 Web Server issueW317W32219465387
   PubMed Web of Science ®Google Scholar
• Gene Ontology ConsortiumThe gene ontology (GO) project in 2006Nucleic Acids Res200634 Database issueD322D32616381878
   PubMed Web of Science ®Google Scholar
• MiHDongQMuruganujanAGaudetPLewisSThomasPDPANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology ConsortiumNucleic Acids Res201038 Database issueD204D21020015972
   PubMed Web of Science ®Google Scholar
• KanehisaMGotoSKEGG: Kyoto Encyclopedia of Genes and GenomesNucleic Acids Res2000281273010592173
   PubMed Web of Science ®Google Scholar
• OliverosJC2007–2015Venny. An interactive tool for comparing lists with Venn’s diagrams Available from: http://bioinfogp.cnb.csic.es/tools/venny/index.html
   Google Scholar
• JensenLJKuhnMStarkMSTRING 8 – a global view on proteins and their functional interactions in 630 organismsNucl Acids Res200937 Database issueD412D41618940858
   PubMed Web of Science ®Google Scholar
• ShannonPMarkielAOzierOCytoscape: a software environment for integrated models of biomolecular interaction networksGenome Res200313112498250414597658
   PubMed Web of Science ®Google Scholar
• WedzichaJASeemungalTACOPD exacerbations: defining their cause and preventionLancet2007370958978679617765528
   PubMed Web of Science ®Google Scholar
• HassanTCarrollTPBuckleyPGmiR-199a-5p silencing regulates the unfolded protein response in chronic obstructive pulmonary disease and alpha1-antitrypsin deficiencyAm J Respir Crit Care Med2014189326327324299514
   PubMed Web of Science ®Google Scholar
• IkariJNelsonAJObaidJReduced microRNA-503 expression augments lung fibroblast VEGF production in chronic obstructive pulmonary diseasePLoS One2017129e018403928880936
   PubMed Web of Science ®Google Scholar
• ConickxGMestdaghPAvila CobosFMicroRNA profiling reveals a role for microRNA-218-5p in the pathogenesis of chronic obstructive pulmonary diseaseAm J Respir Crit Care Med20171951435627409149
   PubMed Web of Science ®Google Scholar
• ShenZTangWGuoJSunSmiR-483-5p plays a protective role in chronic obstructive pulmonary diseaseInt J Mol Med201740119320028534971
   PubMed Web of Science ®Google Scholar
• ShenWLiuJZhaoGRepression of Toll-like receptor-4 by microRNA-149-3p is associated with smoking-related COPDInt J Chron Obstruct Pulmon Dis20171270571528260877
   PubMed Web of Science ®Google Scholar
• SarrionIMilianLJuanGRole of circulating miRNAs as biomarkers in idiopathic pulmonary arterial hypertension: possible relevance of miR-23aOxid Med Cell Longev2015201579284625815108
   PubMed Web of Science ®Google Scholar
• QiuYYZhangYWQianXFBianTmiR-371, miR-138, miR-544, miR-145, and miR-214 could modulate Th1/Th2 balance in asthma through the combinatorial regulation of Runx3Am J Trans Res20179731843199
   Web of Science ®Google Scholar
• SuojalehtoHLindstromIMajuriMLAltered microRNA expression of nasal mucosa in long-term asthma and allergic rhinitisInt Arch Allergy Immunol2014163316817824513959
   PubMed Web of Science ®Google Scholar
• HsuYLHungJYChangWAHypoxic lung cancer-secreted exosomal miR-23a increased angiogenesis and vascular permeability by targeting prolyl hydroxylase and tight junction protein ZO-1Oncogene201736344929494228436951
   PubMed Web of Science ®Google Scholar
• HuHXuZLiCMiR-145 and miR-203 represses TGF-beta-induced epithelial-mesenchymal transition and invasion by inhibiting SMAD3 in non-small cell lung cancer cellsLung Cancer201697879427237033
   PubMed Web of Science ®Google Scholar
• ZhuDChenHYangXDecreased microRNA-224 and its clinical significance in non-small cell lung cancer patientsDiagn Pathol2014919825410592
   PubMed Web of Science ®Google Scholar
• DuanYZhouMXiaoJPrediction of key genes and miRNAs responsible for loss of muscle force in patients during an acute exacerbation of chronic obstructive pulmonary diseaseInt J Mol Med20163851450146228025995
   PubMed Web of Science ®Google Scholar
• GuXGaoYMuDGFuEQMiR-23a-5p modulates mycobacterial survival and autophagy during mycobacterium tuberculosis infection through TLR2/MyD88/NF-kappaB pathway by targeting TLR2Exp Cell Res20173542717728327409
   PubMed Web of Science ®Google Scholar
• KuhnARSchlauchKLaoRHalaykoAJGerthofferWTSingerCAMicroRNA expression in human airway smooth muscle cells: role of miR-25 in regulation of airway smooth muscle phenotypeAm J Respir Cell Mol Biol201042450651319541842
   PubMed Web of Science ®Google Scholar
• ShenBPanQYangYmiR-224 affects mammary epithelial cell apoptosis and triglyceride production by downregulating ACADM and ALDH2 genesDNA Cell Biol2017361263327918674
   PubMed Web of Science ®Google Scholar
• TilleyAEHarveyBGHeguyADown-regulation of the notch pathway in human airway epithelium in association with smoking and chronic obstructive pulmonary diseaseAm J Respir Crit Care Med2009179645746619106307
   PubMed Web of Science ®Google Scholar
• ChurgACosioMWrightJLMechanisms of cigarette smoke-induced COPD: insights from animal modelsAm J Physiol Lung Cell Mol Physiol20082944L612L63118223159
   PubMed Web of Science ®Google Scholar
• HalvorsenARBjaanaesMLeBlancMA unique set of 6 circulating microRNAs for early detection of non-small cell lung cancerOncotarget2016724372503725927191990
   PubMedGoogle Scholar
• KellerALeidingerPBauerAToward the blood-borne miRNome of human diseasesNat Methods201181084184321892151
   PubMed Web of Science ®Google Scholar
• HurstJRVestboJAnzuetoASusceptibility to exacerbation in chronic obstructive pulmonary diseaseN Engl J Med2010363121128113820843247
   PubMed Web of Science ®Google Scholar
• TashkinDPFrequent exacerbations of chronic obstructive pulmonary disease – a distinct phenotype?N Engl J Med2010363121183118420843256
   PubMed Web of Science ®Google Scholar
• KimCKoYKimSHUrinary desmosine is associated with emphysema severity and frequent exacerbation in patients with COPDRespirology201823217618128905464
   PubMed Web of Science ®Google Scholar
• BainesKJFuJJMcDonaldVMGibsonPGAirway gene expression of IL-1 pathway mediators predicts exacerbation risk in obstructive airway diseaseInt J Chron Obstruct Pulmon Dis20171254155028223794
   PubMed Web of Science ®Google Scholar
• FuJJMcDonaldVMBainesKJGibsonPGAirway IL-1beta and Systemic Inflammation as Predictors of Future Exacerbation Risk in Asthma and COPDChest2015148361862925950204
   PubMed Web of Science ®Google Scholar
• ShangguanHTanSYZhangJRBioinformatics analysis of gene expression profiles in hepatocellular carcinomaEur Rev Med Pharmacol Sci201519112054206126125269
   PubMed Web of Science ®Google Scholar
• KongXDLiuNXuXJBioinformatics analysis of biomarkers and transcriptional factor motifs in Down syndromeBraz J Med Biol Res2014471083484125118625
   PubMed Web of Science ®Google Scholar
• GuoYBaoYMaMYangWIdentification of key candidate genes and pathways in colorectal cancer by integrated bioinformatical analysisInt J Mol Sci2017184E72228350360
   PubMed Web of Science ®Google Scholar
• ParkCYuNChoiIKimWLeeSlncRNAtor: a comprehensive resource for functional investigation of long non-coding RNAsBioinformatics201430172480248524813212
   PubMed Web of Science ®Google Scholar
• SongESongWRenMIdentification of potential crucial genes associated with carcinogenesis of clear cell renal cell carcinomaJ Cell Biochem Epub20171211
   Web of Science ®Google Scholar
• SongYJLiGHeJHGuoYYangLBioinformatics-based identification of microRNA-regulated and rheumatoid arthritis-associated genesPLoS One2015109e013755126359667
   PubMed Web of Science ®Google Scholar
• ZhengLQWangRChiSMLiCXMatrix metalloproteinase 1: a better biomarker for squamous cell carcinoma by multiple microarray analysesG Ital Dermatol Venereol Epub20171215
   Web of Science ®Google Scholar
• LiHWangHSunZGuoQShiHJiaYThe clinical and prognostic value of polo-like kinase 1 in lung squamous cell carcinoma patients: immunohistochemical analysisBiosci Rep Epub2017719
   Web of Science ®Google Scholar
• LinZFShenXYLuFZRuanZHuangHLZhenJReveals new lung adenocarcinoma cancer genes based on gene expressionEur Rev Med Pharmacol Sci20121691249125623047510
   PubMed Web of Science ®Google Scholar
• YangYLiHHouSHuBLiuJWangJDifferences in gene expression profiles and carcinogenesis pathways involved in cisplatin resistance of four types of cancerOncol Rep201330259661423733047
   PubMed Web of Science ®Google Scholar