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2018 ; 15
(5
): 7783-7793
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Bioinformatic analysis and prediction of the function and regulatory network of
long non-coding RNAs in hepatocellular carcinoma
#MMPMID29740493
Cao MR
; Han ZP
; Liu JM
; Li YG
; Lv YB
; Zhou JB
; He JH
Oncol Lett
2018[May]; 15
(5
): 7783-7793
PMID29740493
show ga
Computational analysis and bioinformatics have significantly advanced the ability
of researchers to process and analyze biological data. Molecular data from human
and model organisms may facilitate drug target validation and identification of
biomarkers with increased predictive accuracy. The aim of the present study was
to investigate the function of long non-coding RNAs (lncRNAs) in hepatocellular
carcinoma (HCC) using online databases, and to predict their regulatory
mechanism. HCC-associated lncRNAs, their downstream transcription factors and
microRNAs (miRNAs/miRs), as well as the HCC-associated target genes, were
identified using online databases. HCC-associated lncRNAs, including HOX
antisense intergenic RNA (HOTAIR) and metastasis-associated lung adenocarcinoma
transcript 1 (MALAT1) were selected based on established databases of lncRNAs.
The interaction between the HCC-associated lncRNAs and miRNAs (hsa-miR-1,
hsa-miR-20a-5p) was predicted using starBase2.0. Signal transducer and activator
of transcription 1, hepatocyte nuclear factor 4? (HNF4A), octamer-binding
transcription factor 4, Nanog homeobox (NANOG), caudal type homeobox 2 (CDX2),
DEAD-box helicase 5, brahma-related gene 1, MYC-associated factor X and MYC
proto-oncogene, bHLH transcription factor have been identified as the
transcription factors for HOTAIR and MALAT1 using ChIPBase. Additionally, CDX2,
HNF4A, NANOG, ETS transcription factor, Jun proto-oncogene and forkhead box
protein A1 were identified as the transcription factors for hsa-miR-1 and
hsa-miR-20a-5p. CDX2, HNF4A and NANOG were the transcriptional factors in common
between the lncRNAs and miRNAs. Cyclin D1, E2F transcription factor 1, epithelial
growth factor receptor, MYC, MET proto-oncogene, receptor tyrosine kinase and
vascular endothelial growth factor A were identified as target genes for the HCC
progression, two of which were also the target genes of hsa-miR-1 and
hsa-miR-20a-5p using the miRwalk and OncoDN. HCC databases. Additionally, these
target genes may be involved in biological functions, including the regulation of
cell growth, cell cycle progression and mitosis, and in disease progression, as
demonstrated using DAVID clustering analysis. The present study aimed to predict
a regulatory network of lncRNAs in HCC progression using bioinformatics analysis.