title: Finding homologs in amino acid sequences using network BLAST searches.
abstract: BLAST, Basic Local Alignment Search Tool is used more frequently than any other biosequence database search program. The purpose of this unit is not only to show how to run searches on the Web, but also to demonstrate how to fine-tune arguments for a specific research project. It also offers guidance for interpreting results, handling statistical significance and biological relevance issues, and selecting complementary analyses. This unit covers three classes of the BLAST program: standard protein-to-protein searches, translated searches when either the query or the database consists of nucleotide sequences translated into proteins, and finally programs for comparing two sequences (as opposed to searching one sequence against a database of sequences).
authors.affiliation: Celera Genomics, Foster City, California and Research Group for Evolutionary Genetics Hungarian Academy of Sciences Eötvös University, Budapest, Hungary.
authors.forename: Istvan
authors.initials: I
authors.lastname: Ladunga
mesh_terms: D000595:Amino Acid Sequence; D003628:Database Management Systems; D030562:Databases, Protein; D016247:Information Storage and Retrieval; D020407:Internet; D008969:Molecular Sequence Data; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D017386:Sequence Homology, Amino Acid; D012984:Software
chemical_list: D011506:Proteins