Analysis of long non-coding RNA expression profiles in high-glucose treated vascular endothelial cells.

BMC Endocrine Disorders
Erqin XuXiaoyan Pei

Abstract

Diabetes mellitus is often associated with microvascular and macrovascular lesions, and hyperglycemia-induced vascular endothelial cell damage is a key factor. We investigated long non-coding RNAs (lncRNAs) and mRNAs that are affected by hyperglycemia-induced damage using human umbilical vein endothelial cells (HUVECs) as a model. HUVECs were cultured under high (25 mmol/L) or normal (5 mmol/L) glucose conditions for 6 d, and then lncRNAs and protein-coding transcripts were profiled by RNA-seq. Among 40,379 lncRNAs screened, 214 were upregulated (log2 [fold-change] > 1, FDR < 0.05) and 197 were downregulated (log2 [fold-change] < - 1, FDR < 0.05) in response to high-glucose. Furthermore, among 28,431 protein-coding genes screened, 778 were upregulated and 998 were downregulated. A total of 945 lncRNA/mRNA pairs were identified, including 126 differentially expressed lncRNAs predicted to target 201 mRNAs, among which 26 were cis-regulatory interactions. The corresponding lncRNA-mRNA network was composed of 354 lncRNA nodes, 1167 mRNA nodes and 9735 edges. Dozens of lncRNAs with high degree may play important roles in high-glucose-induced HUVEC damage, including ENST00000600527, NONHSAT037576.2, NONHSAT135706.2, ENST00000602127, ...Continue Reading

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Citations

Feb 1, 2021·Comparative Biochemistry and Physiology. Part B, Biochemistry & Molecular Biology·Mohammad AbbasJeffrey A Stuart
Jun 18, 2021·Diabetes, Metabolic Syndrome and Obesity : Targets and Therapy·Chengqi YanZhenbing Chen
Aug 26, 2021·Pharmacogenomics and Personalized Medicine·Hala M F MohammadNaglaa Mokhtar

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Methods Mentioned

BETA
RNA-seq
electrophoresis

Software Mentioned

FastQC
ClusterProfiler
SEQTK
gffcompare
Stringtie
Cytoscape
Ensembl
RNAplex
EdgeR
Hisat2

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