Implementation Of A Database And Sequence Visualization System Based On Physicochemical Properties Of K-tuple Nucleotides

Genome analysis methods based on machine learning are widely used in the identification of replication origins,promoters,indels and some other functional elements.The key step is how to represent the genomic sequences as fixed-length digital vectors or other forms of discrete representations.Physicochemical properties of k-tuple nucleotides play an important role in the numerical representation process.The properties are scattered in different resources and there is a lack of comprehensive collection.Therefore,this paper implements a comprehensive database that can be browsed,searched,downloaded,and used for gene sequence visualization and a web application that can visualize properties of the whole genome sequences by combining the popular web front-end framework Vue.js,My SQL and other technologies.The paper firstly discusses the construction of a database of physicochemical properties for k-tuple nucleotides.The web application of this part implements data browsing,fuzzy searches,downloading,and simple visualization of DNA/RNA sequence conversion based on the physicochemical properties.In this section,we collected physicochemical properties of k-tuple nucleotide and deployed the whole application.Another part of the paper discusses the visualization of physicochemical properties for whole genome sequences.Although the aforementioned database contains simple visualization and analysis capabilities,it is still impossible to effectively visualize genome-scale data.The web application of this part integrates different specialized visualization frameworks to visualize genome-wide sequences based on k-tuple nucleotides physicochemical properties.