Visualizing profile-profile alignment: pairwise HMM logos.
other · Level V
Where this comes from
- Record sourced from PubMed, PMID 15827079.
- No licence information is recorded for this record.
- Because redistribution is not established, this page shows the abstract only. Follow the links below for the full text.
Abstract
The availability of advanced profile-profile comparison tools, such as PRC or HHsearch demands sophisticated visualization tools not presently available. We introduce an approach built upon the concept of HMM logos. The method illustrates the similarities of pairs of protein family profiles in an intuitive way. Two HMM logos, one for each profile, are drawn one upon the other. The aligned states are then highlighted and connected. A web interface offering online creation of pairwise HMM logos is available at http://www.sanger.ac.uk/Software/analysis/logomat-p. Furthermore, software developers may download a Perl package that includes methods for creation of pairwise HMM logos locally. bsb@sanger.ac.uk.
Medical subject headings
- Gene Expression Profiling
- Models, Chemical
- Models, Molecular
- Proteins
- Sequence Alignment
- Sequence Analysis, Protein
- User-Computer Interface