Cancer Genetics and Epigenetics 2016, Vol.4, No.1, 1-10
1
Research Article Open Access
Identify the Relationship between ncRNA and Ion Channel Using
Multiple-network*
LI F. F., JIAM. W.
College of Science, Hebei University of Technology, Tianjin 300401, China
*This work was supported by a grant from Graduate Creative Ability Training funded projects in Hebei Province (220056)
Corresponding author email
Cancer Genetics and Epigenetics
2016, Vol.4, No.1 doi
Received: 08 Aug., 2016
Accepted: 09 Sep., 2016
Published: 12 Sep., 2016
This is an open access article published under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and
reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article
:
LI F.F. and JIA M.W., 2016, Identify the Relationship between ncRNA and Ion Channel Using Multiple-network, Cancer Genetics and Epigenetics, 4(1): 1-10
(doi
Abstract
Non-coding RNAs and ion channels as biologically important molecules involved in many important biological processes,
in particular they are involved in the development process of cancers, cardiovascular diseases and neurodegenerative diseases.
Non-coding RNAs account for the majority of the human genome, and regulate the expression of a number of protein-coding genes.
Study of the relationship between non-coding RNAs and ion channels will help us better understand the mechanism of diseases;
however, the current research about it was not sufficient. In this paper, we obtained probes information of human protein-coding
genes and ncRNAs using probe re-annotation method. A high quality Multi co-expression network was built combined with
Alzheimer’s disease gene expression data sets, ion channel protein-coding genes, the gene expression correlation of each gene
expression profile, and the consistency of co-expression direction in the gene expression profiles. Construction of multi
co-expression network, then we analyzed the features of the network, predicted ncRNAs function, analyzed the relationship between
the ncRNAs and ion channel genes and the relationship between ncRNAs and Alzheimer's disease-related genes. We found that
ncRNAs and ion channels have relationships between the function and expression, VDAC2 and 5 ncRNAs may be involved in the
pathogenesis of Alzheimer’s disease.
Keywords
Non-coding RNA; Ion channel; Co-expression network; Alzheimer’s disease
Background
Non-coding RNA (ncRNA), which could not be translated to protein, can be divided into two categories, One is
the long non-coding RNA (lncRNA), the other is small non-coding RNA such as miRNA and microRNA. In the
past, lncRNA is considered as genome "dark matter"(Zhao et al., 2014). However, the current studies show that a
large number of ncRNA exist in mammals and plays an important role in many biological processes, for example,
imprinting control, immune response and cell differentiation (Taft et al., 2010; Mercer et al., 2009; Pang et al.,
2006).In humans, the protein-coding genes in the genome sequence is only a small fraction (about 1.5%), more
than 98% of the non-coding sequences of genes (Bertone et al., 2004). Mutations and disorders of ncRNAs often
cause many human diseases, such as cancer (Mercer et al., 2009), cardiovascular disease (Congrains et al., 2012),
neurodegenerative diseases (Johnson, 2012), even, ncRNAs can also be used as molecular markers of treatments
of cancer (Bolton et al., 2014). In Alzheimer's disease, lncRNA BACE1AS is the antisense strand RNA of
encoding β-secretase enzyme gene, β secretase enzyme can produce β- amyloid, and β- amyloid accumulation is
one of the main reasons leading to the occurrence of Alzheimer's disease (Faghihi et al., 2008). Pseudogene
PTENP1 is absent in many cancers (eg, colon cancer, prostate cancer), which regulate the expression of tumor
suppressor PTEN by complete binding site with miRNA (Poliseno et al., 2010). lncRNA HOTTIP through the
interaction with compound WDR5 / MLL to regulate the expression of HOXA locus, which plays an important
role in the development, relapse and metastasis of leukemia and liver cancer (Wang et al., 2011; Quagliata et al.,
2014).
Ion channels are transmembrane channels of controlling ion passive transport, and involved in various biological
processes, for example, nerve cells generate electrical signals, glandular secretion, muscle activity,
neurotransmitter release and so on. Voltage-gated anion selective channel (VDAC) regulates metabolic function of
