Normalized Feature Vectors: A Novel Alignment-Free Sequence Comparison Method Based on the Numbers of Adjacent Amino Acids

Based on all kinds of adjacent amino acids (AAA), we map each protein primary sequence into a 400 by (L-1) matrix M. In addition, we further derive a normalized 400-tuple mathematical descriptors D, which is extracted from the primary protein sequences via singular values decomposition (SVD) of the...

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Veröffentlicht in:	IEEE/ACM transactions on computational biology and bioinformatics 2013-03, Vol.10 (2), p.457-467
Hauptverfasser:	Huang, De-Shuang, Yu, Hong-Jie
Format:	Artikel
Sprache:	eng
Schlagworte:	Adjacent amino acids Algorithms alignment free Amino Acid Sequence Amino acids Amino Acids - chemistry Animals Bioinformatics Computational Biology - methods Databases, Protein Educational institutions Feature extraction Humans normalized feature vector Phylogeny Proteins Proteins - chemistry Sequence Analysis, Protein - methods similarity analysis singular value decomposition (SVD) Vectors Vertebrates
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