{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,5,14]],"date-time":"2024-05-14T15:17:10Z","timestamp":1715699830962},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"8","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,4,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: 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.<\/jats:p>\n               <jats:p>Availability: The implementation as a C library is freely available at www.cs.iastate.edu\/\u223cankitag\/PSIBLAST_PairwiseStatSig.html<\/jats:p>\n               <jats:p>Contact: \u00a0ankitag@cs.iastate.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bionformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp089","type":"journal-article","created":{"date-parts":[[2009,2,28]],"date-time":"2009-02-28T01:55:53Z","timestamp":1235786153000},"page":"1082-1083","source":"Crossref","is-referenced-by-count":13,"title":["PSIBLAST_PairwiseStatSig: reordering PSI-BLAST hits using pairwise statistical significance"],"prefix":"10.1093","volume":"25","author":[{"given":"Ankit","family":"Agrawal","sequence":"first","affiliation":[{"name":"Department of Computer Science, Iowa State University, 226 Atanasoff Hall, Ames, IA 50011-1041, USA"}]},{"given":"Xiaoqiu","family":"Huang","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Iowa State University, 226 Atanasoff Hall, Ames, IA 50011-1041, USA"}]}],"member":"286","published-online":{"date-parts":[[2009,2,27]]},"reference":[{"key":"2023051607021261800_B1","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1504\/IJCBDD.2008.022207","article-title":"Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment","volume":"1","author":"Agrawal","year":"2008","journal-title":"IJCBDD"},{"key":"2023051607021261800_B2","doi-asserted-by":"crossref","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","article-title":"Gapped BLAST and PSI-BLAST: a new generation of protein database search programs","volume":"25","author":"Altschul","year":"1997","journal-title":"Nucleic Acids Res."},{"key":"2023051607021261800_B3","doi-asserted-by":"crossref","first-page":"6073","DOI":"10.1073\/pnas.95.11.6073","article-title":"Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships","volume":"95","author":"Brenner","year":"1998","journal-title":"Proc. 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