title: J-Circos: an interactive Circos plotter.
abstract: CONCLUSIONS
  Circos plots are graphical outputs that display three dimensional chromosomal interactions and fusion transcripts. However, the Circos plot tool is not an interactive visualization tool, but rather a figure generator. For example, it does not enable data to be added dynamically nor does it provide information for specific data points interactively. Recently, an R-based Circos tool (RCircos) has been developed to integrate Circos to R, but similarly, Rcircos can only be used to generate plots. Thus, we have developed a Circos plot tool (J-Circos) that is an interactive visualization tool that can plot Circos figures, as well as being able to dynamically add data to the figure, and providing information for specific data points using mouse hover display and zoom in/out functions. J-Circos uses the Java computer language to enable, it to be used on most operating systems (Windows, MacOS, Linux). Users can input data into J-Circos using flat data formats, as well as from the Graphical user interface (GUI). J-Circos will enable biologists to better study more complex chromosomal interactions and fusion transcripts that are otherwise difficult to visualize from next-generation sequencing data.
  
  
  METHODS
  J-circos and its manual are freely available at http://www.australianprostatecentre.org/research/software/jcircos
  
  
  BACKGROUND
  j.an@qut.edu.au
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: Jiyuan
authors.initials: J
authors.lastname: An
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: John
authors.initials: J
authors.lastname: Lai
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: Atul
authors.initials: A
authors.lastname: Sajjanhar
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: Jyotsna
authors.initials: J
authors.lastname: Batra
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: Chenwei
authors.initials: C
authors.lastname: Wang
authors.affiliation: Australian Prostate Cancer Research Centre-Queensland, Institute of Health and Biomedical Innovation, Queensland University of Technology, Princess Alexandra Hospital and Translational Research Institute, Brisbane, QLD 4102, Australia and School of Information Technology, Deakin University, Burwood, VIC 3125, Australia.
authors.forename: Colleen C
authors.initials: CC
authors.lastname: Nelson
mesh_terms: D002875:Chromosomes; D003196:Computer Graphics; D050939:Gene Fusion; D012984:Software