TitleDe Novo Discovery of Structured ncRNA Motifs in Genomic Sequences.
Publication TypeJournal Article
Year of Publication2014
AuthorsRuzzo WL, Gorodkin J
JournalMethods Mol Biol
Date or Month Published2014

De novo discovery of "motifs" capturing the commonalities among related noncoding ncRNA structured RNAs is among the most difficult problems in computational biology. This chapter outlines the challenges presented by this problem, together with some approaches towards solving them, with an emphasis on an approach based on the CMfinder CMfinder program as a case study. Applications to genomic screens for novel de novo structured ncRNA ncRNA s, including structured RNA elements in untranslated portions of protein-coding genes, are presented.

NotesChapter 15 of Gorodkin, Ruzzo, 2014.
Alternate JournalMethods Mol. Biol.
Citation Key10159
PubMed ID24639166