title: Altered expression of long non-coding RNA and mRNA in mouse cortex after traumatic brain injury.
abstract: The present study aims to detect the altered lncRNA expression in the mouse cortex after traumatic brain injury (TBI). We also simultaneously detected the altered mRNA profile to further analyze the possible function of lncRNA.
  
  
  
  C57BL/6 mice (n=18) were used to construct a controlled cortical impact model. At 24h post-TBI, the cortex around injury site was collected and the total RNA was extracted to construct the cDNA library. RNA sequencing (RNA-seq) was carried out followed by RT-PCR for confirmation. Bioinformatic analysis (including GO analysis, KEGG pathway and co-expression analysis) also were performed.
  
  
  
  A total of 64,530 transcripts were detected in the current sequencing study, in which 27,457 transcripts were identified as mRNA and 37,073 transcripts as lncRNA. A total of 1580 mRNAs (1430 up-regulated and 150 down-regulated) and 823 lncRNAs (667 up-regulated and 156 down-regulated) were significantly changed according to the criteria ( (|)log2((fold change))|>1 and P<0.05). These altered mRNAs were mainly related to inflammatory and immunological activity, metabolism, neuronal and vascular network. The expression of single lncRNA may be related with several mRNAs, and so was the mRNA. Also, a total of 360 new mRNAs and 8041 new lncRNAs were identified. The good reproducibility and reliability of RNA-seq were confirmed by RT-PCR.
  
  
  
  Numerous lncRNAs and mRNAs were significantly altered in mouse cortex around the injury site 24h after TBI. Our present data may provide a promising approach for further study about TBI.
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Jianjun
authors.initials: J
authors.lastname: Zhong
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Li
authors.initials: L
authors.lastname: Jiang
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Chongjie
authors.initials: C
authors.lastname: Cheng
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Zhijian
authors.initials: Z
authors.lastname: Huang
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Hongrong
authors.initials: H
authors.lastname: Zhang
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Han
authors.initials: H
authors.lastname: Liu
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Junchi
authors.initials: J
authors.lastname: He
authors.affiliation: Department of Cerebrovascular, the First Affiliated Hospital of Zunyi Medical College, Zunyi, Guizhou 653000, China.
authors.forename: Fang
authors.initials: F
authors.lastname: Cao
authors.affiliation: Department of Neurosurgery, the Affiliated Hospital of Southwest Medical University, Luzhou, Sichaun 646000, China.
authors.forename: Jianhua
authors.initials: J
authors.lastname: Peng
authors.affiliation: Department of Neurosurgery, the Affiliated Hospital of Southwest Medical University, Luzhou, Sichaun 646000, China.
authors.forename: Yong
authors.initials: Y
authors.lastname: Jiang
authors.affiliation: Department of Neurosurgery, The First Affiliated Hospital of Chongqing Medical University, Chongqing 400016, China.
authors.forename: Xiaochuan
authors.initials: X
authors.lastname: Sun
mesh_terms: D000818:Animals; D000070642:Brain Injuries, Traumatic / Q000235:genetics / Q000378:metabolism*; D002540:Cerebral Cortex / Q000293:injuries / Q000378:metabolism*; D019295:Computational Biology; D015536:Down-Regulation; D015870:Gene Expression; D020869:Gene Expression Profiling; D008297:Male; D051379:Mice; D008810:Mice, Inbred C57BL; D062085:RNA, Long Noncoding / Q000235:genetics / Q000378:metabolism*; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism*; D017423:Sequence Analysis, RNA; D015854:Up-Regulation
chemical_list: D062085:RNA, Long Noncoding; D012333:RNA, Messenger
keywords: Long noncoding RNA; Traumatic brain injury