CTX-BLAST: context sensitive version of protein BLAST.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 17459964.
- 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
We present a software tool CTX-BLAST that incorporates contextual alignment model into the popular protein BLAST program. Our alignment tool allows us to investigate the effect of context-dependency in the protein alignment much more efficient than using previous dynamic algorithms. The software makes use of non-symmetric contextual substitution tables and calculates the statistical significance of a given alignment according to the contextual statistical model. CTX-BLAST is an open source software freely available from www.sourceforge.net/projects/CTX-BLAST. A program for statistical estimation of E-value parameters and the contextual substitution table CTX-BLOSUM62 are also provided. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Algorithms
- Models, Chemical
- Proteins
- Sequence Alignment
- Sequence Analysis, Protein
- Software