{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,19]],"date-time":"2025-06-19T04:23:14Z","timestamp":1750306994312,"version":"3.41.0"},"reference-count":14,"publisher":"Association for Computing Machinery (ACM)","issue":"4","license":[{"start":{"date-parts":[[2013,11,1]],"date-time":"2013-11-01T00:00:00Z","timestamp":1383264000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"funder":[{"DOI":"10.13039\/501100004963","name":"Seventh Framework Programme","doi-asserted-by":"publisher","award":["COST BMBS Action TD1101"],"award-info":[{"award-number":["COST BMBS Action TD1101"]}],"id":[{"id":"10.13039\/501100004963","id-type":"DOI","asserted-by":"publisher"}]},{"name":"ICIR"},{"DOI":"10.13039\/501100003407","name":"Ministero dell'Istruzione, dell'Universit\u00e0 e della Ricerca","doi-asserted-by":"publisher","award":["PRIN 2009 project 009WXT45Y, PON project PON01_02249"],"award-info":[{"award-number":["PRIN 2009 project 009WXT45Y, PON project PON01_02249"]}],"id":[{"id":"10.13039\/501100003407","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Ministry of the Italian University and Research"},{"DOI":"10.13039\/501100004007","name":"Istituto Nazionale di Fisica Nucleare","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100004007","id-type":"DOI","asserted-by":"publisher"}]},{"name":"CNAF"}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":["J. Emerg. Technol. Comput. Syst."],"published-print":{"date-parts":[[2013,11]]},"abstract":"<jats:p>\n            Genome annotation is one of the most important issues in the genomic era. The exponential growth rate of newly sequenced genomes and proteomes urges the development of fast and reliable annotation methods, suited to exploit all the information available in curated databases of protein sequences and structures. To this aim we developed BAR+, the Bologna Annotation Resource.\n            <jats:sup>1<\/jats:sup>\n            The basic notion is that sequences with high identity value to a counterpart can inherit the same function\/s and structure, if available. As a case study we describe how the ATP-binding domain of the ABC transporters can be found and modeled in over 30,000 new sequences not annotated before. We also mapped into BAR+ all the ABC transporters listed in the Transporter Classification DataBase\n            <jats:sup>2<\/jats:sup>\n            and found that within our environment annotation could be extended to another 256,866 sequences.\n          <\/jats:p>","DOI":"10.1145\/2504729","type":"journal-article","created":{"date-parts":[[2013,11,26]],"date-time":"2013-11-26T13:23:15Z","timestamp":1385472195000},"page":"1-8","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":1,"title":["Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters"],"prefix":"10.1145","volume":"9","author":[{"given":"Damiano","family":"Piovesan","sequence":"first","affiliation":[{"name":"University of Bologna"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Giuseppe","family":"Profiti","sequence":"additional","affiliation":[{"name":"University of Bologna"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pier Luigi","family":"Martelli","sequence":"additional","affiliation":[{"name":"University of Bologna"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Piero","family":"Fariselli","sequence":"additional","affiliation":[{"name":"University of Bologna"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rita","family":"Casadio","sequence":"additional","affiliation":[{"name":"University of Bologna"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"320","published-online":{"date-parts":[[2013,11]]},"reference":[{"key":"e_1_2_1_1_1","doi-asserted-by":"publisher","DOI":"10.1128\/EC.1.4.643-652.2002"},{"key":"e_1_2_1_2_1","doi-asserted-by":"publisher","DOI":"10.1021\/pr900204r"},{"key":"e_1_2_1_3_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.febslet.2010.04.043"},{"key":"e_1_2_1_4_1","article-title":"Fast unfolding of communities in large networks","author":"Blondel V. 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The WWWH of remote homolog detection: The state of the art. Brief. Bioinf. 2, 78--87.","journal-title":"Brief. Bioinf."},{"volume-title":"Introduction to Protein Science","author":"Lesk A.","key":"e_1_2_1_8_1","unstructured":"Lesk , A. 2010. Introduction to Protein Science . Oxford University Press , London, UK . Lesk, A. 2010. Introduction to Protein Science. Oxford University Press, London, UK."},{"key":"e_1_2_1_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh435"},{"key":"e_1_2_1_10_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0601602103"},{"key":"e_1_2_1_11_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr292"},{"key":"e_1_2_1_12_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkj001"},{"key":"e_1_2_1_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn862"},{"key":"e_1_2_1_14_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.dnarep.2010.08.008"}],"container-title":["ACM Journal on Emerging Technologies in Computing Systems"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/2504729","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/2504729","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T08:48:42Z","timestamp":1750236522000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/2504729"}},"subtitle":["The Case Study of the ABC Transporters"],"short-title":[],"issued":{"date-parts":[[2013,11]]},"references-count":14,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2013,11]]}},"alternative-id":["10.1145\/2504729"],"URL":"https:\/\/doi.org\/10.1145\/2504729","relation":{},"ISSN":["1550-4832","1550-4840"],"issn-type":[{"type":"print","value":"1550-4832"},{"type":"electronic","value":"1550-4840"}],"subject":[],"published":{"date-parts":[[2013,11]]},"assertion":[{"value":"2012-01-01","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2012-08-01","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2013-11-01","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}