title: PSIBLAST_PairwiseStatSig: reordering PSI-BLAST hits using pairwise statistical significance.
abstract: We present an add-on to BLAST and PSI-BLAST programs to reorder their hits using pairwise statistical significance. Using position-specific substitution matrices to estimate pairwise statistical significance has been recently shown to give promising results in terms of retrieval accuracy, which motivates its use to refine PSI-BLAST results, since PSI-BLAST also constructs a position-specific substitution matrix for the query sequence during the search. The obvious advantage of the approach is more accurate estimates of statistical significance because of pairwise statistical significance, along with the advantage of BLAST/PSI-BLAST in terms of speed.
authors.affiliation: Department of Computer Science, Iowa State University, Ames, IA 50011-1041, USA. ankitag@cs.iastate.edu
authors.forename: Ankit
authors.initials: A
authors.lastname: Agrawal
authors.forename: Xiaoqiu
authors.initials: X
authors.lastname: Huang
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D011506:Proteins / Q000737:chemistry; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods; D012984:Software
chemical_list: D011506:Proteins