Upregulated VEGFA and DLL4 act as potential prognostic genes for clear cell renal cell carcinoma

References

• LjungbergBCampbellSCChoiHYThe epidemiology of renal cell carcinomaEur Urol201160461521741761
   PubMed Web of Science ®Google Scholar
• JonaschEGaoJRathmellWKRenal cell carcinomaBMJ2014349349g479725385470
   PubMed Web of Science ®Google Scholar
• CampbellSCRiniBIRenal cell carcinomaCurr Opin Oncol200937396691119
   Google Scholar
• EscudierBPortaCSchmidingerMRenal cell carcinoma: ESMO Clinical Practice Guidelines for diagnosis, treatment and follow-upAnn Oncol201621Suppl 5v137v139
   Google Scholar
• OtoAHertsBRRemerEMNovickACInferior vena cava tumor thrombus in renal cell carcinoma: staging by MR imaging and impact on surgical treatmentAJR Am J Roentgenol1998171616199843299
   PubMed Web of Science ®Google Scholar
• SingerEAGuptaGNMarchalikDSrinivasanREvolving therapeutic targets in renal cell carcinomaCurr Opin Oncol201325327323455028
   PubMed Web of Science ®Google Scholar
• GrignonDJCheMClear cell renal cell carcinomaClin Lab Med200525230531615848738
   PubMed Web of Science ®Google Scholar
• JosephRWKapurPSerieDJLoss of BAP1 protein expression is an independent marker of poor prognosis in patients with low-risk clear cell renal cell carcinomaCancer201412071059106724382589
   PubMed Web of Science ®Google Scholar
• FarleyMNSchmidtLSMesterJLA novel germline mutation in BAP1 predisposes to familial clear-cell renal cell carcinomaMol Cancer Res20131191061107123709298
   PubMed Web of Science ®Google Scholar
• WhiteNMAMasuiONewstedDGalectin-1 has potential prognostic significance and is implicated in clear cell renal cell carcinoma progression through the HIF/mTOR signaling axisBr J Cancer201411051250125924496460
   PubMed Web of Science ®Google Scholar
• LichnerZScorilasAWhiteNMAThe chromatin remodeling gene ARID1A is a new prognostic marker in clear cell renal cell carcinomaAm J Pathol20131824116323416164
   PubMed Web of Science ®Google Scholar
• ParkJHLeeCSuhJHChaeJYKimHWMoonKCDecreased ARID1A expression correlates with poor prognosis of clear cell renal cell carcinomaHum Pathol201546345446025628030
   PubMed Web of Science ®Google Scholar
• DvorakHFVascular permeability factor/vascular endothelial growth factor: a critical cytokine in tumor angiogenesis and a potential target for diagnosis and therapyJ Clin Oncol20022021436812409337
   PubMed Web of Science ®Google Scholar
• KuhnertFKirshnerJRThurstonGDll4-Notch signaling as a therapeutic target in tumor angiogenesisVasc Cell2011312021923938
   PubMedGoogle Scholar
• WangJHMinPQWangPJDynamic CT evaluation of tumor vascularity in renal cell carcinomaAJR Am J Roentgenol200618651423143016632740
   PubMed Web of Science ®Google Scholar
• RobinsonMDMcCarthyDJSmythGKedgeR: a bioconductor package for differential expression analysis of digital gene expression dataBioinformatics201026113914019910308
   PubMed Web of Science ®Google Scholar
• McCarthyDJChenYSmythGKDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variationNucleic Acids Res201240104288429722287627
   PubMed Web of Science ®Google Scholar
• SmythGKLimma: linear models for microarray dataBioinformatics and Computational Biology Solutions Using R and BioconductorGentlemanRCareyVDudoitSR IrizarryWHNew YorkSpringer2005397420
   Google Scholar
• BenjaminiYHochbergYControlling the false discovery rate: a practical and powerful approach to multiple testingJ Roy Statist Soc Ser B1995571289300
   Google Scholar
• HarrisMAClarkJIrelandAGene Ontology ConsortiumThe Gene Ontology (GO) database and informatics resourceNucl Acids Res200432Database issue258261
   PubMedGoogle Scholar
• AltermannEKlaenhammerTRPathwayVoyager: pathway mapping using the Kyoto Encyclopedia of Genes and Genomes (KEGG) databaseBMC Genomics2005616015869710
   PubMed Web of Science ®Google Scholar
• CalderoneACastagnoliLCesareniGMentha: a resource for browsing integrated protein-interaction networksNat Methods201310869069123900247
   PubMed Web of Science ®Google Scholar
• Chatr-AryamontriABreitkreutzBJOughtredRThe BioGRID interaction database: 2015 updateNucl Acids Res201543Database issueD470D47825428363
   PubMed Web of Science ®Google Scholar
• Keshava PrasadTSGoelRKandasamyKHuman Protein Reference Database – 2009 updateNucl Acids Res200937Database issueD767D77218988627
   PubMed Web of Science ®Google Scholar
• ShannonPMarkielAOzierOCytoscape: a software environment for integrated models of biomolecular interaction networksGenome Res200313112498250414597658
   PubMed Web of Science ®Google Scholar
• TangYLiMWangJPanYWuFXCytoNCA: a cytoscape plugin for centrality analysis and evaluation of protein interaction networksBio Systems20151276772
   PubMed Web of Science ®Google Scholar
• HeXZhangJWhy do hubs tend to be essential in protein networks?PLoS Genet200626826834
   Web of Science ®Google Scholar
• BreuerKForoushaniAKLairdMRInnateDB: systems biology of innate immunity and beyond – recent updates and continuing curationNucl Acids Res201341Database issueD1228D123323180781
   PubMed Web of Science ®Google Scholar
• GautierLCopeLBolstadBMIrizarryRAAffy – analysis of Affymetrix GeneChip data at the probe levelBioinformatics2004202030731514960456
   PubMed Web of Science ®Google Scholar
• IrizarryRAHobbsBCollinFExploration, normalization, and summaries of high density oligonucleotide array probe level dataBiostatisics20034249264
   PubMed Web of Science ®Google Scholar
• PerperoglouACox models with dynamic ridge penalties on time-varying effects of the covariatesStat Med201433117023913655
   PubMed Web of Science ®Google Scholar
• ArochoAChenBLadanyiMPanQValidation of the 2-ΔΔCt calculation as an alternate method of data analysis for quantitative PCR of BCR-ABL P210 transcriptsDiagn Mol Pathol2006151566116531770
   PubMedGoogle Scholar
• JacobsenJRasmusonTGrankvistKLjungbergBVascular endothelial growth factor as prognostic factor in renal cell carcinomaJ Urol2000163134310604387
   PubMed Web of Science ®Google Scholar
• JacobsenJGrankvistKRasmusonTBerghALandbergGLjungbergBExpression of vascular endothelial growth factor protein in human renal cell carcinomaBJU Int2007933297
   Web of Science ®Google Scholar
• ChoueiriTKXieWKollmannsbergerCThe impact of cytoreductive nephrectomy on survival of patients with metastatic renal cell carcinoma receiving vascular endothelial growth factor targeted therapyJ Urol2011185185606621074201
   PubMed Web of Science ®Google Scholar
• HuangQBMaXLiHZEndothelial Delta-like 4 (DLL4) promotes renal cell carcinoma hematogenous metastasisOncotarget2014510306624931473
   PubMedGoogle Scholar
• MilesKMSeshadriMCiamporceroEDll4 blockade potentiates the anti-tumor effects of VEGF inhibition in renal cell carcinoma patient-derived xenograftsPLoS One2014911e11237125393540
   PubMed Web of Science ®Google Scholar
• RibattiDThe discovery of the placental growth factor and its role in angiogenesis: a historical reviewAngiogenesis200811321522118568405
   PubMed Web of Science ®Google Scholar
• MatsumotoKSuzukiKKoikeHPrognostic significance of plasma placental growth factor levels in renal cell cancer: an association with clinical characteristics and vascular endothelial growth factor levelsAnticancer Res2003236D4953495814981951
   PubMed Web of Science ®Google Scholar
• BullockAJZhangLO’NeillAMPlasma angiopoietin-2 (ANG2) as an angiogenic biomarker in renal cell carcinoma (RCC)J Clin Oncol2010281516761680
   Web of Science ®Google Scholar
• LuRJiZLiXmiR-145 functions as tumor suppressor and targets two oncogenes, ANGPT2 and NEDD9, in renal cell carcinomaJ Cancer Res Clin Oncol2014140338739724384875
   PubMed Web of Science ®Google Scholar
• DalyCEichtenACastanaroCAngiopoietin-2 functions as a Tie2 agonist in tumor models, where it limits the effects of VEGF inhibitionCancer Res201373110823149917
   PubMed Web of Science ®Google Scholar
• LuHCaoXZhangHImbalance between MMP-2, 9 and TIMP-1 promote the invasion and metastasis of renal cell carcinoma via SKP2 signaling pathwaysTumor Biol201435109807
   Google Scholar
• MccabeAJWallaceJMGilmoreWSMcglynnHStrainSJDocosahexaenoic acid reduces in vitro invasion of renal cell carcinoma by elevated levels of tissue inhibitor of metalloproteinase-1J Nutr Biochem2005161172215629236
   PubMed Web of Science ®Google Scholar
• KallakuryBVKarikehalliSHaholuASheehanCEAzumiNRossJSIncreased expression of matrix metalloproteinases 2 and 9 and tissue inhibitors of metalloproteinases 1 and 2 correlate with poor prognostic variables in renal cell carcinomaClin Cancer Res20017103113311911595703
   PubMed Web of Science ®Google Scholar
• BhuvarahamurthyVKristiansenGOJohannsenMIn situ gene expression and localization of metalloproteinases MMP1, MMP2, MMP3, MMP9, and their inhibitors TIMP1 and TIMP2 in human renal cell carcinomaOncol Rep2006155137916596214
   PubMed Web of Science ®Google Scholar
• EngersRSpringerEMichielsFCollardJGGabbertHERac affects invasion of human renal cell carcinomas by up-regulating tissue inhibitor of metalloproteinases (TIMP)-1 and TIMP-2 expressionJ Biol Chem200127645418894189711551917
   PubMed Web of Science ®Google Scholar