Mutual enrichment in ranked lists and the statistical assessment of position weight matrix motifs.

ABSTRACT:

Background

Statistics in ranked lists is useful in analysing molecular biology measurement data, such as differential expression, resulting in ranked lists of genes, or ChIP-Seq, which yields ranked lists of genomic sequences. State of the art methods study fixed motifs in ranked lists of sequences. More flexible models such as position weight matrix (PWM) motifs are more challenging in this context, partially because it is not clear how to avoid the use of arbitrary thresholds.

Results

To assess the enrichment of a PWM motif in a ranked list we use a second ranking on the same set of elements induced by the PWM. Possible orders of one ranked list relative to another can be modelled as permutations. Due to sample space complexity, it is difficult to accurately characterize t

SUBMITTER: Leibovich L 

PROVIDER: S-EPMC4021615 | biostudies-literature | 2014 Apr

REPOSITORIES: biostudies-literature