FIMO: scanning for occurrences of a given motif.

ABSTRACT:

Unlabelled

A motif is a short DNA or protein sequence that contributes to the biological function of the sequence in which it resides. Over the past several decades, many computational methods have been described for identifying, characterizing and searching with sequence motifs. Critical to nearly any motif-based sequence analysis pipeline is the ability to scan a sequence database for occurrences of a given motif described by a position-specific frequency matrix.

Results

We describe Find Individual Motif Occurrences (FIMO), a software tool for scanning DNA or protein sequences with motifs described as position-specific scoring matrices. The program computes a log-likelihood ratio score for each position in a given sequence database, uses established dynamic programming met

SUBMITTER: Grant CE 

PROVIDER: S-EPMC3065696 | biostudies-literature | 2011 Apr

REPOSITORIES: biostudies-literature