Genome-wide analysis of lncRNA stability in human

• DOI: 10.1371/journal.pcbi.1008918
• Publication Date: 2021-04-16T18:44:24Z
• Authors: Kaiwen Shi; Tao Liu; Hanjiang Fu; Wuju Li; Xiaofei Zheng
• Keywords: Transcription

Transcript stability is associated with many biological processes, and the factors affecting mRNA have been extensively studied. However, little known about features related to human long noncoding RNA (lncRNA) stability. By inhibiting transcription collecting samples in 10 time points, genome-wide RNA-seq studies was performed lung adenocarcinoma cells (A549) half-life datasets were constructed. The following observations obtained. First, distributions of both lncRNAs messanger RNAs (mRNAs) one exon (lnc-human1 m-human1) significantly different from those mRNAs more than (lnc-human2 m-human2). Furthermore, some such as full-length transcript secondary structures played a contrary role lnc-human1 m-human2. Second, through comparisons nucleus- cytoplasm-specific common mRNAs, nucleus found be less stable cytoplasm, which derived transcripts themselves rather cellular location. Third, kmers-based protein−RNA or RNA−RNA interactions promoted lncRNA decreased m-human2 high probability. Finally, applying deep learning−based regression, non-linear relationship exist between half-lives factors. present study established regulation networks A549 cell line shed new light on degradation behaviors mRNAs.