Utilize este identificador para referenciar este registo: http://hdl.handle.net/10400.22/1452
Título: Multi-dimensional scaling applied to histogram-based DNA analysis
Autor: Costa, António Cardoso
Machado, J. A. Tenreiro
Quelhas, Dulce
Palavras-chave: MDS
Histogram
Analysis
DNA
Data: 2012
Editora: Hindawi Publishing Corporation
Relatório da Série N.º: Comparative and Functional Genomics; Vol. 2012
Resumo: 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 τ 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 “word length.” 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’s artifacts.
Peer review: yes
URI: http://hdl.handle.net/10400.22/1452
ISSN: 1531-6912
Versão do Editor: http://www.hindawi.com/journals/ijg/2012/289694/
Aparece nas colecções:ISEP – GECAD – Artigos

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