Abstract
Long intergenic noncoding RNAs (lincRNAs) are novel long noncoding RNA molecules transcribed from intergenic sequences. MicroRNAs (miRNAs) are short noncoding RNA sequence about 21 ~ 25 nucleotides. Both lincRNAs and miRNAs can regulate gene expression widely. It is worth to explore the functions of lincRNAs and their relations with miRNAs. Here, we first collected available RNA-Seq data of cucumber samples as many as possible and surveyed the landscape of lincRNAs in genome scale. Then, we constructed a complex network of gene expression regulation using co-expression and ce-RNA (competing endogenous RNA) method based on three kinds of RNA: lincRNAs, mRNA, and miRNA. Finally, the functions of lincRNAs are inferred from the network of lincRNAs-mRNAs co-expression and miRNA-lincRNAs-mRNAs. Our results provide the most comprehensive perception in cucumber lincRNA aspects.
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