D-graph clusters flaviviruses and β-coronaviruses according to their hosts, disease type and human cell receptors.

ABSTRACT:

Motivation

There is a need for rapid and easy to use, alignment free methods to cluster large groups of protein sequence data. Commonly used phylogenetic trees based on alignments can be used to visualize only a limited number of protein sequences. DGraph, introduced here, is a dynamic programming application developed to generate 2D-maps based on similarity scores for sequences. The program automatically calculates and graphically displays property distance (PD) scores based on physico-chemical property (PCP) similarities from an unaligned list of FASTA files. Such "PD-graphs" show the interrelatedness of the sequences, whereby clusters can reveal deeper connectivities.

Results

PD-Graphs generated for flavivirus (FV), enterovirus (EV), and coronavirus (CoV) sequences from c

SUBMITTER: Braun BA 

PROVIDER: S-EPMC7430575 | biostudies-literature | 2020 Aug

REPOSITORIES: biostudies-literature