BLAST Basic Local

The aim of the fust dimension breadth is to reveal sequence-function relationships by comparing protein sequences by sequence similarity. Simple bioinformatic algorithms can be used to compare a pair of related proteins or for sequence similarity searches e.g., BLAST (Basic Local Alignment Search Tool). Improved algorithms allow multiple alignments of larger number of proteins and extraction of consensus sequence pattern and sequence profiles or structural templates, which can be related to some functions, see e.g., under http //www. expasy.ch/tools/ similarity. [Pg.777]

BLAST basic local alignment search tool... [Pg.418]

BLAST Basic Local Alignment Search Tool. One of the more widely used tools in genome informatics, for similarity searches of protein or DNA sequences. [Pg.163]

The most popular tool currently in use is BLAST (Basic Local Alignment Search Tool) (3 7) from the NCBI. BLAST is an example of a heuristic that attempts to optimize a specific similarity measure. The most recent revisions to the algorithm are gapped BLAST and PSI-BLAST (38), with improved accuracy for PSI-BLAST using composition-based statistics... [Pg.347]

BLAST Basic Local Alignment Search Tool... [Pg.614]

Several mutations, especially those in homozygosis, may go undetected in a preliminary analysis of the electropherograms. It is therefore recommended to use an alignment program such as BLAST (basic local alignment search tool http //blast.ncbi. nlm. nih.gov/Blast.cgi) to detect these kind of variants. [Pg.64]

BLAST Basic local alignment search tool for discovery of matching patterns of DNA or protein sequences. [Pg.516]

BLAST (Basic Local Alignment Search Tool), National Institutes of Health http //www.ncbi.nlm.nih.gov/BLAST/... [Pg.444]

BLAST (basic local alignment search tool) 105, 108, 255... [Pg.1846]

BLAST Basic Local Alignment Search Tool is the most popular nucleotide and protein similarity searching tool in bioinformatics. It is web-accessible, free, fast, and can search many databases at the same time. It can detect isolated sequence patterns, especially if used with the more recent position-specific iterative method PSI-BLAST. Similarity of residues can be defined via mutation or physicochemical substitution matrices. [Pg.748]

A sequence tag from an unknown protein allows a number of further options for characterisation. Even a short stretch of amino acid sequence provides a powerful means of interrogating a protein database, and may provide a useful alternative to PMF in poor quality samples that may have peptides derived from more than one protein. More advanced database searching systems will find proteins with homologous sequences to that of the peptide tag. A good example of this type of database searching system is BLAST (Basic Local Alignment Sequence Tool), (Altschul et al., 1997). A modified form of this (MS BLAST) was used in conjunction with PMF to characterise the proteome of the yeast Pichia pastoris, whose genome has not been fully sequenced... [Pg.191]

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