A bootstrap based analysis pipeline for efficient classification of phylogenetically related animal miRNAs.

ABSTRACT:

Background

Phylogenetically related miRNAs (miRNA families) convey important information of the function and evolution of miRNAs. Due to the special sequence features of miRNAs, pair-wise sequence identity between miRNA precursors alone is often inadequate for unequivocally judging the phylogenetic relationships between miRNAs. Most of the current methods for miRNA classification rely heavily on manual inspection and lack measurements of the reliability of the results.

Results

In this study, we designed an analysis pipeline (the Phylogeny-Bootstrap-Cluster (PBC) pipeline) to identify miRNA families based on branch stability in the bootstrap trees derived from overlapping genome-wide miRNA sequence sets. We tested the PBC analysis pipeline with the miRNAs from six animal spec

SUBMITTER: Huang Y 

PROVIDER: S-EPMC1832191 | biostudies-literature | 2007 Mar

REPOSITORIES: biostudies-literature