{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2022,3,30]],"date-time":"2022-03-30T01:36:56Z","timestamp":1648604216507},"reference-count":12,"publisher":"Hindawi Limited","license":[{"start":{"date-parts":[[2012,1,1]],"date-time":"2012-01-01T00:00:00Z","timestamp":1325376000000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Comparative and Functional Genomics"],"published-print":{"date-parts":[[2012]]},"abstract":"<jats:p>This paper aims to study the relationships between chromosomal DNA sequences of twenty species. We propose a methodology combining DNA-based word frequency histograms, correlation methods, and an MDS technique to visualize structural information underlying chromosomes (CRs) and species. Four statistical measures are tested (Minkowski, Cosine, Pearson product-moment, and Kendall<mml:math xmlns:mml=\"http:\/\/www.w3.org\/1998\/Math\/MathML\" id=\"M1\"><mml:mrow><mml:mi>\u03c4<\/mml:mi><\/mml:mrow><\/mml:math>rank correlations) to analyze the information content of 421 nuclear CRs from twenty species. The proposed methodology is built on mathematical tools and allows the analysis and visualization of very large amounts of stream data, like DNA sequences, with almost no assumptions other than the predefined DNA \u201cword length.\u201d This methodology is able to produce comprehensible three-dimensional visualizations of CR clustering and related spatial and structural patterns. The results of the four test correlation scenarios show that the high-level information clusterings produced by the MDS tool are qualitatively similar, with small variations due to each correlation method characteristics, and that the clusterings are a consequence of the input data and not method\u2019s artifacts.<\/jats:p>","DOI":"10.1155\/2012\/289694","type":"journal-article","created":{"date-parts":[[2012,7,24]],"date-time":"2012-07-24T17:01:55Z","timestamp":1343149315000},"page":"1-11","source":"Crossref","is-referenced-by-count":0,"title":["Multidimensional Scaling Applied to Histogram-Based DNA Analysis"],"prefix":"10.1155","volume":"2012","author":[{"given":"Ant\u00f3nio C.","family":"Costa","sequence":"first","affiliation":[{"name":"Department of Informatics Engineering, Institute of Engineering, Polytechnic of Porto, Rua Dr. Ant\u00f3nio Bernardino de Almeida 431, 4200-072 Porto, Portugal"}]},{"given":"J. A.","family":"Tenreiro Machado","sequence":"additional","affiliation":[{"name":"Department of Electrical Engineering, Institute of Engineering, Polytechnic of Porto, Rua Dr. Ant\u00f3nio Bernardino de Almeida 431, 4200-072 Porto, Portugal"}]},{"given":"Maria Dulce","family":"Quelhas","sequence":"additional","affiliation":[{"name":"National Health Institute and Biochemical Genetics Unit, Institute of Medical Genetics Center Jacinto de Magalh\u00e3es, Pra\u00e7a Pedro Nunes 88, 4099-028 Porto, Portugal"}]}],"member":"98","reference":[{"key":"1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btg005"},{"key":"2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr131"},{"key":"3","doi-asserted-by":"publisher","DOI":"10.1093\/biomet\/30.1-2.81"},{"key":"15","doi-asserted-by":"publisher","DOI":"10.1089\/cmb.2009.0198"},{"issue":"1","key":"7","first-page":"59","volume":"42","year":"1988","journal-title":"The American Statistician"},{"key":"8","year":"2001"},{"key":"9","year":"2005"},{"key":"10","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-9-179"},{"key":"11","year":"1978"},{"key":"12","doi-asserted-by":"publisher","DOI":"10.1007\/BF02289621"},{"key":"13","first-page":"89","volume-title":"Chapter 8: the genetic code","year":"1990"},{"key":"14","doi-asserted-by":"publisher","DOI":"10.1016\/j.cnsns.2010.11.007"}],"container-title":["Comparative and Functional Genomics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/downloads.hindawi.com\/journals\/ijg\/2012\/289694.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/downloads.hindawi.com\/journals\/ijg\/2012\/289694.xml","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/downloads.hindawi.com\/journals\/ijg\/2012\/289694.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2016,8,18]],"date-time":"2016-08-18T12:51:46Z","timestamp":1471524706000},"score":1,"resource":{"primary":{"URL":"http:\/\/www.hindawi.com\/journals\/ijg\/2012\/289694\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012]]},"references-count":12,"alternative-id":["289694","289694"],"URL":"https:\/\/doi.org\/10.1155\/2012\/289694","relation":{},"ISSN":["1531-6912","1532-6268"],"issn-type":[{"value":"1531-6912","type":"print"},{"value":"1532-6268","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012]]}}}