Multiple-microarray analysis for identification of hub genes involved in tubulointerstial injury in diabetic nephropathy

Mengru Zeng, Jialu Liu, Wenxia Yang, Shumin Zhang, Fuyou Liu, Zheng Dong, Youming Peng, Lin Sun, Li Xiao

Research output: Contribution to journalArticle

Abstract

Diabetic nephropathy (DN) is a primary cause of renal failure. However, studies providing renal gene expression profiles of diabetic tubulointerstitial injury are scarce and its molecular mechanisms still await clarification. To identify vital genes involved in the diabetic tubulointerstitial injury, three microarray data sets from gene expression omnibus (GEO) were downloaded. A total of 127 differentially expressed genes (DEGs) were identified by limma package. Gene set enrichment analysis (GSEA) plots showed that sister chromatid cohesion was the most significant enriched gene set positively correlated with the DN group while retinoid X receptor binding was the most significant enriched gene set positively correlated with the control group. Enriched Gene Ontology (GO) annotations and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways of DEGs mostly included extracellular matrix organization, extracellular space, extracellular matrix structural constituent, and Staphylococcus aureus infection. Twenty hub genes from three significant modules were ascertained by Cytoscape. Correlation analysis and subgroup analysis between hub genes and clinical features of DN showed that ALB, ANXA1, APOH, C3, CCL19, COL1A2, COL3A1, COL4A1, COL6A3, CXCL6, DCN, EGF, HRG, KNG1, LUM, SERPINA3, SPARC, SRGN, and TIMP1 may involve in diabetic tubulointerstitial injury. ConnectivityMap analysis indicated the most significant three compounds are 5182598, thapsigargin and 5224221. In conclusion, this study may provide new insights into the molecular mechanisms underlying diabetic tubulointerstitial injury as well as potential targets for diagnosis and therapeutics of DN.

Original languageEnglish (US)
Pages (from-to)16447-16462
Number of pages16
JournalJournal of Cellular Physiology
Volume234
Issue number9
DOIs
StatePublished - Sep 1 2019

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Diabetic Nephropathies
Microarray Analysis
Microarrays
Genes
Wounds and Injuries
Extracellular Matrix
Gene expression
Encyclopedias
Retinoid X Receptors
Molecular Sequence Annotation
Gene Ontology
Chromatids
Thapsigargin
Extracellular Space
Transcriptome
Epidermal Growth Factor
Renal Insufficiency
Staphylococcus aureus
Ontology
Genome

Keywords

  • computational biology
  • diabetic nephropathies
  • diagnosis
  • therapeutics
  • tubulointerstial injury

ASJC Scopus subject areas

  • Physiology
  • Clinical Biochemistry
  • Cell Biology

Cite this

Multiple-microarray analysis for identification of hub genes involved in tubulointerstial injury in diabetic nephropathy. / Zeng, Mengru; Liu, Jialu; Yang, Wenxia; Zhang, Shumin; Liu, Fuyou; Dong, Zheng; Peng, Youming; Sun, Lin; Xiao, Li.

In: Journal of Cellular Physiology, Vol. 234, No. 9, 01.09.2019, p. 16447-16462.

Research output: Contribution to journalArticle

Zeng, Mengru ; Liu, Jialu ; Yang, Wenxia ; Zhang, Shumin ; Liu, Fuyou ; Dong, Zheng ; Peng, Youming ; Sun, Lin ; Xiao, Li. / Multiple-microarray analysis for identification of hub genes involved in tubulointerstial injury in diabetic nephropathy. In: Journal of Cellular Physiology. 2019 ; Vol. 234, No. 9. pp. 16447-16462.
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