{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,6,6]],"date-time":"2024-06-06T22:01:30Z","timestamp":1717711290924},"reference-count":0,"publisher":"Oxford University Press (OUP)","issue":"13","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2004,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: When studying multiple alignments of genomic sequences one frequently aims to locate and count regions which satisfy a set of constraints. These regions may be putatively functional, but researchers may also be interested in quantifying the frequency of occurrences of certain patterns.<\/jats:p>\n               <jats:p>Results: We have developed a program that applies simple formulas and pattern specifications to multiple alignments, reporting the positions and counts of conforming regions. As an example, we have navigated a 15-species alignment of the CAV2\u2013CAV1 region and outlined some findings regarding PPAR\u03b3 binding sites.<\/jats:p>\n               <jats:p>Availability: Our software and the accompanying documentation can be obtained at no charge by contacting the authors. It can also be accessed at http:\/\/ranger.uta.edu\/~nick\/compgen<\/jats:p>","DOI":"10.1093\/bioinformatics\/bth196","type":"journal-article","created":{"date-parts":[[2004,3,30]],"date-time":"2004-03-30T01:34:06Z","timestamp":1080610446000},"page":"2140-2142","source":"Crossref","is-referenced-by-count":7,"title":["Identifying multiple alignment regions satisfying simple formulas and patterns"],"prefix":"10.1093","volume":"20","author":[{"given":"Nikola","family":"Stojanovic","sequence":"first","affiliation":[]},{"given":"Ken","family":"Dewar","sequence":"additional","affiliation":[]}],"member":"286","published-online":{"date-parts":[[2004,3,25]]},"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/20\/13\/2140\/48905884\/bioinformatics_20_13_2140.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/20\/13\/2140\/48905884\/bioinformatics_20_13_2140.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T16:34:27Z","timestamp":1674664467000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/20\/13\/2140\/241880"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2004,3,25]]},"references-count":0,"journal-issue":{"issue":"13","published-print":{"date-parts":[[2004,9,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/bth196","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2004,9,1]]},"published":{"date-parts":[[2004,3,25]]}}}