title: ChAsE: chromatin analysis and exploration tool.
abstract: : We present ChAsE, a cross-platform desktop application developed for interactive visualization, exploration and clustering of epigenomic data such as ChIP-seq experiments. ChAsE is designed and developed in close collaboration with several groups of biologists and bioinformaticians with a focus on usability and interactivity. Data can be analyzed through k-means clustering, specifying presence or absence of signal in epigenetic data and performing set operations between clusters. Results can be explored in an interactive heat map and profile plot interface and exported for downstream analysis or as high quality figures suitable for publications.
  
  
  
  Software, source code (MIT License), data and video tutorials available at http://chase.cs.univie.ac.at CONTACT: : mkarimi@brc.ubc.ca or torsten.moeller@univie.ac.atSupplementary information: Supplementary data are available at Bioinformatics online.
authors.affiliation: Graphics Usability and Visualization Lab, Simon Fraser University, Burnaby, Canada Canada's Michael Smith Genome Sciences Centre, Vancouver, Canada Biomedical Research Centre, University of British Columbia, Vancouver, Canada.
authors.forename: Hamid
authors.initials: H
authors.lastname: Younesy
authors.affiliation: Canada's Michael Smith Genome Sciences Centre, Vancouver, Canada Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, Canada Department of Molecular Oncology, BC Cancer Agency, Vancouver, Canada.
authors.forename: Cydney B
authors.initials: CB
authors.lastname: Nielsen
authors.affiliation: Department of Medical Genetics, Life Sciences Institute, University of British Columbia, Vancouver, Canada.
authors.forename: Matthew C
authors.initials: MC
authors.lastname: Lorincz
authors.affiliation: Canada's Michael Smith Genome Sciences Centre, Vancouver, Canada Department of Medical Genetics, Life Sciences Institute, University of British Columbia, Vancouver, Canada Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, Canada.
authors.forename: Steven J M
authors.initials: SJ
authors.lastname: Jones
authors.affiliation: Biomedical Research Centre, University of British Columbia, Vancouver, Canada Department of Medical Genetics, Life Sciences Institute, University of British Columbia, Vancouver, Canada.
authors.forename: Mohammad M
authors.initials: MM
authors.lastname: Karimi
authors.affiliation: Graphics Usability and Visualization Lab, Simon Fraser University, Burnaby, Canada Visualization and Data Analysis Lab, Faculty of Computer Science, University of Vienna, Wien, Austria.
authors.forename: Torsten
authors.initials: T
authors.lastname: Möller
mesh_terms: D000818:Animals; D002843:Chromatin; D016000:Cluster Analysis; D006801:Humans; D011381:Programming Languages; D012984:Software
chemical_list: D002843:Chromatin