Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.

LncRNAs, which represent one of the most highly expressed classes of ncRNAs in the brain, are becoming increasingly interesting with regard to brain functions and disorders. However, changes in the expression of regulatory lncRNAs in Major Depressive Disorder (MDD) have not yet been reported. Using...

Full description

Bibliographic Details
Main Authors: Zhifen Liu, Xinrong Li, Ning Sun, Yong Xu, Yaqin Meng, Chunxia Yang, Yanfang Wang, Kerang Zhang
Format: Article
Language:English
Published: Public Library of Science (PLoS) 2014-01-01
Series:PLoS ONE
Online Access:http://europepmc.org/articles/PMC3968145?pdf=render
_version_ 1818267583749554176
author Zhifen Liu
Xinrong Li
Ning Sun
Yong Xu
Yaqin Meng
Chunxia Yang
Yanfang Wang
Kerang Zhang
author_facet Zhifen Liu
Xinrong Li
Ning Sun
Yong Xu
Yaqin Meng
Chunxia Yang
Yanfang Wang
Kerang Zhang
author_sort Zhifen Liu
collection DOAJ
description LncRNAs, which represent one of the most highly expressed classes of ncRNAs in the brain, are becoming increasingly interesting with regard to brain functions and disorders. However, changes in the expression of regulatory lncRNAs in Major Depressive Disorder (MDD) have not yet been reported. Using microarrays, we profiled the expression of 34834 lncRNAs and 39224 mRNAs in peripheral blood sampled from MDD patients as well as demographically-matched controls. Among these, we found that 2007 lncRNAs and 1667 mRNAs were differentially expressed, 17 of which were documented as depression-related gene in previous studies. Gene Ontology (GO) and pathway analyses indicated that the biological functions of differentially expressed mRNAs were related to fundamental metabolic processes and neurodevelopment diseases. To investigate the potential regulatory roles of the differentially expressed lncRNAs on the mRNAs, we also constructed co-expression networks composed of the lncRNAs and mRNAs, which shows significant correlated patterns of expression. In the MDD-derived network, there were a greater number of nodes and connections than that in the control-derived network. The lncRNAs located at chr10:874695-874794, chr10:75873456-75873642, and chr3:47048304-47048512 may be important factors regulating the expression of mRNAs as they have previously been reported associations with MDD. This study is the first to explore genome-wide lncRNA expression and co-expression with mRNA patterns in MDD using microarray technology. We identified circulating lncRNAs that are aberrantly expressed in MDD and the results suggest that lncRNAs may contribute to the molecular pathogenesis of MDD.
first_indexed 2024-12-12T20:24:54Z
format Article
id doaj.art-0885f5ee1c584d42a52dea088fca4eac
institution Directory Open Access Journal
issn 1932-6203
language English
last_indexed 2024-12-12T20:24:54Z
publishDate 2014-01-01
publisher Public Library of Science (PLoS)
record_format Article
series PLoS ONE
spelling doaj.art-0885f5ee1c584d42a52dea088fca4eac2022-12-22T00:13:10ZengPublic Library of Science (PLoS)PLoS ONE1932-62032014-01-0193e9338810.1371/journal.pone.0093388Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.Zhifen LiuXinrong LiNing SunYong XuYaqin MengChunxia YangYanfang WangKerang ZhangLncRNAs, which represent one of the most highly expressed classes of ncRNAs in the brain, are becoming increasingly interesting with regard to brain functions and disorders. However, changes in the expression of regulatory lncRNAs in Major Depressive Disorder (MDD) have not yet been reported. Using microarrays, we profiled the expression of 34834 lncRNAs and 39224 mRNAs in peripheral blood sampled from MDD patients as well as demographically-matched controls. Among these, we found that 2007 lncRNAs and 1667 mRNAs were differentially expressed, 17 of which were documented as depression-related gene in previous studies. Gene Ontology (GO) and pathway analyses indicated that the biological functions of differentially expressed mRNAs were related to fundamental metabolic processes and neurodevelopment diseases. To investigate the potential regulatory roles of the differentially expressed lncRNAs on the mRNAs, we also constructed co-expression networks composed of the lncRNAs and mRNAs, which shows significant correlated patterns of expression. In the MDD-derived network, there were a greater number of nodes and connections than that in the control-derived network. The lncRNAs located at chr10:874695-874794, chr10:75873456-75873642, and chr3:47048304-47048512 may be important factors regulating the expression of mRNAs as they have previously been reported associations with MDD. This study is the first to explore genome-wide lncRNA expression and co-expression with mRNA patterns in MDD using microarray technology. We identified circulating lncRNAs that are aberrantly expressed in MDD and the results suggest that lncRNAs may contribute to the molecular pathogenesis of MDD.http://europepmc.org/articles/PMC3968145?pdf=render
spellingShingle Zhifen Liu
Xinrong Li
Ning Sun
Yong Xu
Yaqin Meng
Chunxia Yang
Yanfang Wang
Kerang Zhang
Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
PLoS ONE
title Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
title_full Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
title_fullStr Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
title_full_unstemmed Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
title_short Microarray profiling and co-expression network analysis of circulating lncRNAs and mRNAs associated with major depressive disorder.
title_sort microarray profiling and co expression network analysis of circulating lncrnas and mrnas associated with major depressive disorder
url http://europepmc.org/articles/PMC3968145?pdf=render
work_keys_str_mv AT zhifenliu microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT xinrongli microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT ningsun microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT yongxu microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT yaqinmeng microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT chunxiayang microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT yanfangwang microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder
AT kerangzhang microarrayprofilingandcoexpressionnetworkanalysisofcirculatinglncrnasandmrnasassociatedwithmajordepressivedisorder