Exploring the association of long noncoding RNA expression profiles with intracranial aneurysms, based on sequencing and related bioinformatics analysis

Abstract

Background The present study aims to investigate the complete long non-coding RNA (lncRNA) and messenger RNA (mRNA) expression profiles in Intracranial aneurysm (IA) patients and controls by RNA sequencing, which reveals the lncRNA with predictive value for IA risk. Methods The comprehensive lncRNA and mRNA expression profiles were detected by RNA-Seq in human IA walls and superficial temporal arteries (STAs), followed by bioinformatics analyses, such as GO analysis, KEGG pathway analysis, and CNC network construction. Subsequently, qRT-PCR was used to profile the expression levels of selected lncRNA (lncRNA ENST000000576153, lncRNA ENST00000607042, lncRNA ENST00000471220, lncRNA ENST00000478738, lncRNA MALAT1, lncRNA ENST00000508090 and lncRNA ENST00000579688) in 30 (small) or 130 (large) peripheral blood leukocytes, respectively. Multivariate logistic regression was utilized to analyze the effects of lncRNA on IA. Receiver operating characteristic (ROC) curve was further drawn to explore the value of lncRNA in predicting IA. Results Totally 900 up-regulated and 293 down-regulated lncRNAs, as well as 1297 up-regulated and 831 down-regulated mRNAs were discovered in sequencing. Enrichment analyses revealed that they were actively involved in immune/inflammatory response and cell adhesion/extracellular matrix. Co-expression analysis and further enrichment analyses showed that five candidate lncRNAs might participate in IA’s inflammatory response. Besides, after controlling other conventional risk factors, multivariate logistic regression analysis disclosed that low expression of lncRNA ENST00000607042, lncRNA ENST00000471220, lncRNA ENST00000478738, lncRNA MALAT1 in peripheral blood leukocytes were independent risk factors for IA. LncRNA ENST00000607042 has superior diagnostic value for IA. Conclusions This study reveals the complete lncRNAs expression profiles in IA. The inflammatory response was closely related to IA. Besides, lncRNA ENST00000607042 might be a novel biomarker for IA risk.

Comprehensive analysis of lncRNA-mRNAs co-expression network identifies potential lncRNA biomarkers in cutaneous squamous cell carcinoma

“…An increasing number of studies described that dysregulated lncRNA expression is associated with various cancers and may contribute to tumorigenesis, metastasis and prognosis of many tumors [ 35 ]. Recent studies demonstrated that lncRNAs can be utilized as a disease biomarkers and biomarkers for survival prediction in cervical cancer, colorectal cancer and skin cancers [ 36 – 38 ].Available evidence has reported that comprehensive analysis of interaction between lncRNAs and mRNAs may provide a reference for further explore its biological functions and the potential underlying mechanisms in cancers [ 39 ]. In order to better study whether lncRNA is involved in cSCC tumorigenesis, we constructed co-expression network of top 1000 pairs of lncRNAs and mRNAs to annotate clear biological functions and regulatory mechanism of lncRNAs [ 40 ].…”

The expression patterns of MALAT-1, NEAT-1, THRIL, and miR-155-5p in the acute to the post-acute phase of COVID-19 disease

“…To determine the expression pattern of lncRNAs (MALAT-1, [40] NEAT-1 [41] and THRIL, [42] ), as well as GAPDH and β-actin (as normalization controls for relative quantification),[ 42 , 43 ] cDNA was synthesized using 350 ng of the total RNA as previously described in detail. [44] …”

Integrated Transcriptional Profiling Analysis and Immune-Related Risk Model Construction for Intracranial Aneurysm Rupture

“…Long noncoding RNAs (lncRNAs) are RNAs of more than 200 nucleotides in length ( Ma et al, 2020 ), and they have direct and indirect regulatory roles in tumors, cardiovascular diseases, and other diseases ( Luo et al, 2019 ; Omura et al, 2020 ). More recently, some studies have explored the lncRNA expression profiles in IAs ( Sun et al, 2020 ; Tutino et al, 2020 ). It is widely accepted that lncRNAs function by regulating the binding of microRNAs to their target mRNAs, which is known as the competitive endogenous RNA (ceRNA) hypothesis.…”