1. Genomecmp: computer software to detect genomic rearrangements using markers
- Author
-
Robert Nowak and Maciej Kulawik
- Subjects
0301 basic medicine ,business.industry ,Computer science ,Software development ,Process (computing) ,Genomics ,Base (topology) ,computer.software_genre ,Genome ,Task (project management) ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,030220 oncology & carcinogenesis ,Web application ,Data mining ,business ,computer ,Graphical user interface - Abstract
Detection of genomics rearrangements is a tough task, because of the size of data to be processed. As genome sequences may consist of hundreds of millions symbols, it is not only practically impossible to compare them by hand, but it is also complex problem for computer software. The way to significantly accelerate the process is to use rearrangement detection algorithm based on unique short sequences called markers. The algorithm described in this paper develops markers using base genome and find the markers positions on other genome. The algorithm has been extended by support for ambiguity symbols. Web application with graphical user interface has been created using three-layer architecture, where users could run the task simultaneously. The accuracy and efficiency of proposed solution has been studied using generated and real data.
- Published
- 2017