A Novel Construction of Genome Space with Biological Geometry

Yu, Chenglong; Liang, Qian; Yin, Changchuan; He, Rong L.; Yau, Stephen S.-T.

For the simplest genome structures, linear singlestrand forms, we can treat them as linear DNA sequences. That is, every genome corresponds to a general DNA sequence. Thus, we can utilize our moment vector to construct the genome space. In order to use whole genome information to make comparative analysis among genomes, we can use the first N components (M 1 , M 2 , . . . , M N ) of the moment vector of a genome sequence graph to represent a genome as a point in N-dimensional space. Thus, we obtain an N-dimensional genome space as a subspace in R N . Using the Euclidean distance between two points as an index for comparison, we can perform phylogenetic and clustering analysis for genome sequences in this genome space.