Format

Send to

Choose Destination
Methods. 2015 Dec;91:48-56. doi: 10.1016/j.ymeth.2015.06.015. Epub 2015 Jun 23.

In silico discovery and modeling of non-coding RNA structure in viruses.

Author information

1
Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, CT 06536, USA.
2
Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, CT 06536, USA. Electronic address: joan.steitz@yale.edu.

Abstract

This review covers several computational methods for discovering structured non-coding RNAs in viruses and modeling their putative secondary structures. Here we will use examples from two target viruses to highlight these approaches: influenza A virus-a relatively small, segmented RNA virus; and Epstein-Barr virus-a relatively large DNA virus with a complex transcriptome. Each system has unique challenges to overcome and unique characteristics to exploit. From these particular cases, generically useful approaches can be derived for the study of additional viral targets.

KEYWORDS:

RNA; RNA structure; Sequence analysis; Viruses; ncRNA; ncRNA prediction

PMID:
26116541
PMCID:
PMC4684774
DOI:
10.1016/j.ymeth.2015.06.015
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Elsevier Science Icon for PubMed Central
Loading ...
Support Center