BLAST-XYPlot Viewer: A Tool for Performing BLAST in Whole-Genome Sequenced Bacteria/Archaea and Visualize Whole Results Simultaneously

G3: Genes, Genomes, Genetics

Rodrigo Alberto Cuevas-Vede^2¹  Ángel Bernardo Canto-Gómez^1²  Yagul Pedraza-Pérez^1³ 

[1] Facultad de Ciencias de la Computación, Benemérita Universidad Autónoma de Puebla, Puebla, Pue., México CP 72570^2;Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Mor., México CP 62210^3;Instituto de Ciencias^1

关键词: large scale BLAST;    bacterial genomes;    operon search;    BLAST-XYPlot viewer;   

DOI  :  10.1534/g3.118.200220

学科分类：生物科学（综合）

来源: Genetics Society of America

【 摘 要 】

One of the most commonly used tools to compare protein or DNA sequences against databases is BLAST. We introduce a web tool that allows the performance of BLAST-searches of protein/DNA sequences in whole-genome sequenced bacteria/archaea, and displays a large amount of BLAST-results simultaneously. The circular bacterial replicons are projected as horizontal lines with fixed length of 360, representing the degrees of a circle. A coordinate system is created with length of the replicon along the x -axis and the number of replicon used on the y -axis. When a query sequence matches with a gene/protein of a particular replicon, the BLAST-results are depicted as an “ x,y ” position in a specially adapted plot. This tool allows the visualization of the results from the whole data to a particular gene/protein in real time with low computational resources.

【 授权许可】

CC BY