Multiple alignment-free sequence comparison

Alignment-Free Sequence Comparison Based on Next-Generation Sequencing Reads

(2013) Kai Song et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Estimation of pairwise sequence similarity of mammalian enhancers with word neighbourhood counts

(2012) Jonathan Göke et al.   BIOINFORMATICS

Comparison of metagenomic samples using sequence signatures

(2012) Bai Jiang et al.   BMC GENOMICS

Genomic approaches towards finding cis-regulatory modules in animals

(2012) Ross C. Hardison et al.   NATURE REVIEWS GENETICS

New powerful statistics for alignment-free sequence comparison under a pattern transfer model

(2011) Xuemei Liu et al.   JOURNAL OF THEORETICAL BIOLOGY

An alignment-free method to identify candidate orthologous enhancers in multiple Drosophila genomes

(2010) Manonmani Arunachalam et al.   BIOINFORMATICS

Alignment-Free Sequence Comparison (II): Theoretical Power of Comparison Statistics

(2010) Lin Wan et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

ChIP-Seq identification of weakly conserved heart enhancers

(2010) Matthew J Blow et al.   NATURE GENETICS

Alignment-Free Sequence Comparison (I): Statistics and Power

(2009) Gesine Reinert et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Approximate word matches between two random sequences

(2008) Conrad J. Burden et al.   ANNALS OF APPLIED PROBABILITY