Title :
Finding Duplication Events Using GenomeVectorizer
Author :
Kochetkova, Elena ; Lin, Tsau Young
Author_Institution :
Dept. of Comput. Sci., San Jose State Univ., San Jose, CA, USA
Abstract :
GenomeVectorizer is a genome visualization tool that is designed to extend the functionality of GenomePixelizer, genome visualization tool that was developed for the Department of Plant Pathology at University of California, Davis in 2002. GenomeVectorizer was written using XML, XSLT, and SVG technologies combined with JavaScript scripting to provide the level of flexibility, dynamism and interactivity not supported by TCL/TK written application (GenomePixelizer). GenomeVectorizer was tested with available data for Arabidopsis NBS-LRR study and its output was compared to the output of GenomePixelizer. The relationships drawn at the same identity value were identical. GenomeVectorizer was successfully applied to study NBS-LRR genes and duplication events in Soybean. Once the dragability function will be fully implemented, GenomeVectorizer will be a unique tool on the market of wide variety available Genome Visualization Software.
Keywords :
biology computing; crops; data visualisation; genetic engineering; genetics; genomics; Arabidopsis NBS-LRR study; Davis; Department of Plant Pathology; GenomePixelizer; GenomeVectorizer; JavaScript scripting; SVG; TCL/TK; University of California; XML; XSLT; duplication event; genome visualization tool; soybean; Bioinformatics; Biological cells; Genomics; Image color analysis; Joining processes; Mice; NIST; scientific visualization; visualization;
Conference_Titel :
Granular Computing (GrC), 2010 IEEE International Conference on
Conference_Location :
San Jose, CA
Print_ISBN :
978-1-4244-7964-1
DOI :
10.1109/GrC.2010.160
