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. 2016 Jun 21;11(6):e0156128.
doi: 10.1371/journal.pone.0156128. eCollection 2016.

Expression Profile and Function Analysis of LncRNAs during Priming Phase of Rat Liver Regeneration

Jun Li  1   2   3 , Wei Jin  1   2   3 , Yanli Qin  1   2   3 , Weiming Zhao  1   2   3 , Cuifang Chang  1   2   3 , Cunshuan Xu  1   2   3
Affiliations

Expression Profile and Function Analysis of LncRNAs during Priming Phase of Rat Liver Regeneration

Jun Li et al. PLoS One. .

Abstract

Emerging evidences have revealed that long non-coding RNAs (lncRNAs) functioned in a wide range of physiological and pathophysiological processes including rat liver regeneration, and could regulate gene expression in the transcriptional and post-transcriptional levels. However, the underlying mechanism for lncRNAs participation in liver regeneration is largely unknown. To define the mechanisms how the lncRNAs regulate LR, we performed bio-chip technology, high-throughput sequencing and RT-PCR to detect the expression of lncRNAs at 0, 2 and 6 h during LR after 2/3 hepatectomy (PH). The results indicated that 28 lncRNAs were involved in LR. Bioinformatics analysis predicated 465 co-expression target genes including 10 regulatory genes were related to these 28 lncRNAs. Ingenuity Pathway Analysis (IPA) was employed to analyze the signaling pathways and physiological activities that regulated by these genes, and the results suggested that these genes were potentially related to ILK, SAPK/JNK and ERK/MAPK signaling pathways, and possibly regulate many important physiological activities in LR in terms of cell proliferation, cell differentiation, cell survival, apoptosis and necrosis.

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Conflict of interest statement

Competing Interests: The authors have declared that no competing interests exist.

Figures

Fig 1
Fig 1. The already known transcripts of rat genome.
Fig 2
Fig 2. Analysis of LncRNA feature.
(A) Summary of LncRNA type. (B)The exon number of LncRNA.
Fig 3
Fig 3. Number of the LncRNA and the co-expression or regulated genes.
(A) Numbers of the lncRNAs and the co-expression genes (Trans-acting). (B) Numbers of the lncRNAs and the regulated genes (Cis-acting).
Fig 4
Fig 4. The expression of 28 lncRNAs and target genes.
(A) The expression of 28 LncRNA which have significant changes. (B) The relationship between significantly expressed lncRNAs and their target genes during rat liver regeneration.
Fig 5
Fig 5. The heat maps of signaling pathways and biological functions in which significantly expressed genes were involved in rat liver regeneration.
(A) The heat map of the target genes-related signaling pathways. (B) The heat maps of target genes-related biological functional.
See this image and copyright information in PMC

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