Comparative ncRNA gene and structure prediction using Foldalign and FoldalignM

Jakob Havgaard; Simranjeet Kaur; Jan Gorodkin

doi:10.1002/0471250953.bi1211s39

Comparative ncRNA gene and structure prediction using Foldalign and FoldalignM

Curr Protoc Bioinformatics. 2012 Sep:Chapter 12:12.11.1-12.11.15. doi: 10.1002/0471250953.bi1211s39.

Authors

Jakob Havgaard¹, Simranjeet Kaur¹, Jan Gorodkin¹

Affiliation

¹ Center for Non-Coding RNA in Technology and Health, Department of Veterinary Clinical and Animal Sciences, University of Copenhagen, Copenhagen, Denmark.

PMID: 22948726
DOI: 10.1002/0471250953.bi1211s39

Abstract

This unit describes how to use Foldalign and FoldalignM to make structural alignments of non-protein-coding-RNA (ncRNA). These tools can be used to find new ncRNAs, to find the structure of novel ncRNAs, and to improve alignments for known ncRNAs.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms*
Nucleic Acid Conformation*
RNA, Untranslated
Sequence Alignment / methods*
Sequence Analysis, RNA

Substances

RNA, Untranslated