{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,22]],"date-time":"2025-10-22T02:56:09Z","timestamp":1761101769892},"reference-count":28,"publisher":"Oxford University Press (OUP)","issue":"10","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,5,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Large-scale detection and classification of alternative splicing and transcriptional initiation (ASTI) is the first step towards detailed studies of the functional implication and mechanisms of these phenomena.<\/jats:p>\n               <jats:p>Results: We have developed an algorithm that classifies all observed units of ASTI into an extendable set of distinct types (e.g. cassette type) by converting a collection of alignments between a genomic DNA sequence and cDNA sequences into binary description. This description system can uniquely and compactly encode not only typical patterns but also any rare patterns that are usually collectively assigned to \u2018others.\u2019 More than 150 distinct ASTI types were found when this system was applied to genome-wide detection of ASTI units in human and five other eukaryotes.<\/jats:p>\n               <jats:p>Availability: The data detected by this system are available through ASTRA (), a database equipped with a Java-based browser that can interactively reorganize the order of displayed splicing patterns on demand.<\/jats:p>\n               <jats:p>Contact: \u00a0h-nagasaki@aist.go.jp<\/jats:p>","DOI":"10.1093\/bioinformatics\/btl067","type":"journal-article","created":{"date-parts":[[2006,2,25]],"date-time":"2006-02-25T01:14:23Z","timestamp":1140830063000},"page":"1211-1216","source":"Crossref","is-referenced-by-count":28,"title":["Automated classification of alternative splicing and transcriptional initiation and construction of visual database of classified patterns"],"prefix":"10.1093","volume":"22","author":[{"given":"Hideki","family":"Nagasaki","sequence":"first","affiliation":[{"name":"Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology 1 \u00a0 1 \u00a0 \u00a0 Tokyo 135-0064, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Masanori","family":"Arita","sequence":"additional","affiliation":[{"name":"Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology 1 \u00a0 1 \u00a0 \u00a0 Tokyo 135-0064, Japan"},{"name":"Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo 2 \u00a0 2 \u00a0 \u00a0 Kashiwa 277-8561, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tatsuya","family":"Nishizawa","sequence":"additional","affiliation":[{"name":"Information and Mathematical Science Laboratory Inc. 3 \u00a0 3 \u00a0 \u00a0 Tokyo 171-0014, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Makiko","family":"Suwa","sequence":"additional","affiliation":[{"name":"Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology 1 \u00a0 1 \u00a0 \u00a0 Tokyo 135-0064, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Osamu","family":"Gotoh","sequence":"additional","affiliation":[{"name":"Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology 1 \u00a0 1 \u00a0 \u00a0 Tokyo 135-0064, Japan"},{"name":"Department of Intelligence Science and Technology, Graduate School of Informatics, Kyoto University 4 \u00a0 4 \u00a0 \u00a0 Kyoto 606-8501, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2006,2,24]]},"reference":[{"key":"2023012408205356700_b1","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":"2023012408205356700_b2","doi-asserted-by":"crossref","first-page":"367","DOI":"10.1016\/S0092-8674(00)00128-8","article-title":"Protein diversity from alternative splicing: a challenge for bioinformatics and post-genome biology","volume":"103","author":"Black","year":"2000","journal-title":"Cell"},{"key":"2023012408205356700_b3","doi-asserted-by":"crossref","first-page":"291","DOI":"10.1146\/annurev.biochem.72.121801.161720","article-title":"Mechanisms of alternative pre-messenger RNA splicing","volume":"72","author":"Black","year":"2003","journal-title":"Annu. 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