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Identification of key genes and miRNAs associated with carotid atherosclerosis based on mRNA-seq data.

Abstract This study was aimed to explore the crucial genes and microRNAs (miRNAs) associated with the carotid atherosclerosis (CA).Two public datasets GSE28829 and GSE43292 were obtained from Gene Expression Omnibus databases to analyze the differentially expressed genes (DEGs) between primary and advanced atherosclerotic plaque tissues. The Gene Ontology (GO) terms, pathways, and protein-protein interactions (PPIs) of these DEGs were analyzed. miRNAs and transcription factor (TF) were predicted.A total of 112 upregulated and 179 downregulated intersection DEGs were identified between 2 datasets. In the PPI network, HSP90AB1 (degree = 19), RAP1A (degree = 14), and integrin subunit beta 1 (ITGB1) had higher degrees. A total of 23 miRNAs were predicted, such as miR-126, miR-155, miR-19A, and miR-19B. Four TFs were associated with upregulated DEGs, while 10 TFs were identified to be associated with downregulated genes.Our study suggests the important roles of HSP90AB1, RAP1A, and integrins proteins of ITGB1, ITGA11, ITGA9, and ITGB2 in the progression of CA plaque. Additionally, miR-126, miR-155, miR-19B, and miR-19A may be considered as biomarkers of CA.
PMID
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Authors

Mayor MeshTerms
Keywords
Journal Title medicine
Publication Year Start




PMID- 29595698
OWN - NLM
STAT- MEDLINE
DCOM- 20180411
LR  - 20180411
IS  - 1536-5964 (Electronic)
IS  - 0025-7974 (Linking)
VI  - 97
IP  - 13
DP  - 2018 Mar
TI  - Identification of key genes and miRNAs associated with carotid atherosclerosis
      based on mRNA-seq data.
PG  - e9832
LID - 10.1097/MD.0000000000009832 [doi]
AB  - This study was aimed to explore the crucial genes and microRNAs (miRNAs)
      associated with the carotid atherosclerosis (CA).Two public datasets GSE28829 and
      GSE43292 were obtained from Gene Expression Omnibus databases to analyze the
      differentially expressed genes (DEGs) between primary and advanced
      atherosclerotic plaque tissues. The Gene Ontology (GO) terms, pathways, and
      protein-protein interactions (PPIs) of these DEGs were analyzed. miRNAs and
      transcription factor (TF) were predicted.A total of 112 upregulated and 179
      downregulated intersection DEGs were identified between 2 datasets. In the PPI
      network, HSP90AB1 (degree = 19), RAP1A (degree = 14), and integrin subunit beta 1
      (ITGB1) had higher degrees. A total of 23 miRNAs were predicted, such as miR-126,
      miR-155, miR-19A, and miR-19B. Four TFs were associated with upregulated DEGs,
      while 10 TFs were identified to be associated with downregulated genes.Our study 
      suggests the important roles of HSP90AB1, RAP1A, and integrins proteins of ITGB1,
      ITGA11, ITGA9, and ITGB2 in the progression of CA plaque. Additionally, miR-126, 
      miR-155, miR-19B, and miR-19A may be considered as biomarkers of CA.
FAU - Mao, Zhanglin
AU  - Mao Z
AD  - Department of Vascular Surgery, Yiwu Central Hospital, Yiwu, Zhejing, China,
      Yiwu.
FAU - Wu, Fen
AU  - Wu F
AD  - Department of Vascular Surgery, Yiwu Central Hospital, Yiwu, Zhejing, China,
      Yiwu.
FAU - Shan, Yunfeng
AU  - Shan Y
LA  - eng
PT  - Journal Article
PL  - United States
TA  - Medicine (Baltimore)
JT  - Medicine
JID - 2985248R
RN  - 0 (Integrins)
RN  - 0 (MicroRNAs)
RN  - 0 (Transcription Factors)
SB  - AIM
SB  - IM
MH  - Carotid Artery Diseases/*genetics
MH  - Down-Regulation
MH  - Gene Expression Profiling
MH  - Gene Expression Regulation
MH  - Humans
MH  - Integrins/*genetics
MH  - MicroRNAs/*genetics
MH  - Plaque, Atherosclerotic/genetics
MH  - Protein Interaction Maps
MH  - Transcription Factors/metabolism
MH  - Up-Regulation
EDAT- 2018/03/30 06:00
MHDA- 2018/04/12 06:00
CRDT- 2018/03/30 06:00
PHST- 2018/03/30 06:00 [entrez]
PHST- 2018/03/30 06:00 [pubmed]
PHST- 2018/04/12 06:00 [medline]
AID - 10.1097/MD.0000000000009832 [doi]
AID - 00005792-201803300-00071 [pii]
PST - ppublish
SO  - Medicine (Baltimore). 2018 Mar;97(13):e9832. doi: 10.1097/MD.0000000000009832.