Identifying sequence features that drive ribosomal association for lncRNA 06 Biological Sciences 0604 Genetics

Chao Zeng, Michiaki Hamada

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Background: With the increasing number of annotated long noncoding RNAs (lncRNAs) from the genome, researchers are continually updating their understanding of lncRNAs. Recently, thousands of lncRNAs have been reported to be associated with ribosomes in mammals. However, their biological functions or mechanisms are still unclear. Results: In this study, we tried to investigate the sequence features involved in the ribosomal association of lncRNA. We have extracted ninety-nine sequence features corresponding to different biological mechanisms (i.e., RNA splicing, putative ORF, k-mer frequency, RNA modification, RNA secondary structure, and repeat element). An 1 regularized logistic regression model was applied to screen these features. Finally, we obtained fifteen and nine important features for the ribosomal association of human and mouse lncRNAs, respectively. Conclusion: To our knowledge, this is the first study to characterize ribosome-associated lncRNAs and ribosome-free lncRNAs from the perspective of sequence features. These sequence features that were identified in this study may shed light on the biological mechanism of the ribosomal association and provide important clues for functional analysis of lncRNAs.

Original languageEnglish
Article number906
JournalBMC Genomics
Volume19
DOIs
Publication statusPublished - 2018 Dec 31

Keywords

  • Feature selection
  • lncRNA
  • Ribosome-associated
  • Sequence feature

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Fingerprint Dive into the research topics of 'Identifying sequence features that drive ribosomal association for lncRNA 06 Biological Sciences 0604 Genetics'. Together they form a unique fingerprint.

  • Cite this