TITLE:
An Integrated Analysis of Aberrantly Expressed miRNA and mRNA Profiles Unveils a Robust Regulatory Network in HepG2 Cell
AUTHORS:
Sheng Yang, Hui Zhang, Li Guo, Yang Zhao, Feng Chen
KEYWORDS:
miRNA (microRNA); mRNA; Intergrated Analysis; Hepatoma Carcinoma Cell
JOURNAL NAME:
Engineering,
Vol.5 No.10B,
October
25,
2013
ABSTRACT:
As crucial negative regulatory small non-coding
molecules, microRNAs (miRNAs), have multiple biological roles. The abnormal
expression of specific miRNAs may contribute to the occurrence and development
of tumor. Here, based on HepG2 and L02 cells, we attempted to demonstrate the potential
regulatory network of aberrantly expressed miRNA profiles, interaction between
miRNA and mRNA, and potential functional correlation between different miRNAs.
De-regulated miRNA and mRNA expression profiles were completely
surveyed and identified by applying deep sequenc-ing and microarray
techniques, respectively. The genome-wide and integrative analysis of
miRNA-mRNA was performed based on their functional relationship according to
experimentally validated and predicted targets. Nearly 50% targets were
negatively regulated by at least 2 aberrantly expressed miRNAs. Similar results
were obtained based on experimentally validated and predicted targets. Compared
with abnormal miRNAs, their targets showed various expression
patterns: stably expressed, down-regulated or up-regulated. Although the theoretical
potential miRNA-mRNA interaction could be predicted, they showed
consistent or inconsistent expression patterns. Both functional enrichment
analysis of target mRNAs of dysregulated miRNAs and abnormal mRNA profiles
suggested that corresponding pathways were involved in tumorigenesis. Moreover,
to obtain potential functional relationships between different miRNAs, we also
performed expression analysis of homologous miRNAs in gene families. Generally,
they could co-regulate biological processes with similar roles. The
integrative analysis of miRNA-mRNA indicated a complex and flexible regulatory
network. The robust network mainly derived from multiple targets for a specific
miRNA (and vice versa), each mRNA and co-regulation roles of different miRNAs.