title: Two Sample Logo: a graphical representation of the differences between two sets of sequence alignments.
abstract: Two Sample Logo is a web-based tool that detects and displays statistically significant differences in position-specific symbol compositions between two sets of multiple sequence alignments. In a typical scenario, two groups of aligned sequences will share a common motif but will differ in their functional annotation. The inclusion of the background alignment provides an appropriate underlying amino acid or nucleotide distribution and addresses intersite symbol correlations. In addition, the difference detection process is sensitive to the sizes of the aligned groups. Two Sample Logo extends WebLogo, a widely-used sequence logo generator. The source code is distributed under the MIT Open Source license agreement and is available for download free of charge.
authors.affiliation: Computer Science and Engineering Department, University of California Riverside, CA, USA.
authors.forename: Vladimir
authors.initials: V
authors.lastname: Vacic
authors.forename: Lilia M
authors.initials: LM
authors.lastname: Iakoucheva
authors.forename: Predrag
authors.initials: P
authors.lastname: Radivojac
mesh_terms: D000465:Algorithms; D017398:Alternative Splicing; D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D005091:Exons; D006801:Humans; D020407:Internet; D007438:Introns; D015233:Models, Statistical; D008969:Molecular Sequence Data; D011381:Programming Languages; D016415:Sequence Alignment / Q000379:methods*; D013816:Thermodynamics