CAPER: a chromosome-assembled human proteome browsER

J Proteome Res. 2013 Jan 4;12(1):179-86. doi: 10.1021/pr300831z. Epub 2012 Dec 20.


High-throughput mass spectrometry and antibody-based experiments have begun to produce a large amount of proteomic data sets. Chromosome-based visualization of these data sets and their annotations can help effectively integrate, organize, and analyze them. Therefore, we developed a web-based, user-friendly Chromosome-Assembled human Proteome browsER (CAPER). To display proteomic data sets and related annotations comprehensively, CAPER employs two distinct visualization strategies: track-view for the sequence/site information and the correspondence between proteome, transcriptome, genome, and chromosome and heatmap-view for the qualitative and quantitative functional annotations. CAPER supports data browsing at multiple scales through Google Map-like smooth navigation, zooming, and positioning with chromosomes as the reference coordinate. Both track-view and heatmap-view can mutually switch, providing a high-quality user interface. Taken together, CAPER will greatly facilitate the complete annotation and functional interpretation of the human genome by proteomic approaches, thereby making a significant contribution to the Chromosome-Centric Human Proteome Project and even the human physiology/pathology research. CAPER can be accessed at .

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Antibodies / genetics
  • Antibodies / metabolism
  • Databases, Protein*
  • Genome, Human
  • Humans
  • Information Storage and Retrieval
  • Internet*
  • Molecular Sequence Annotation
  • Proteome* / genetics
  • Proteome* / metabolism
  • Software
  • User-Computer Interface


  • Antibodies
  • Proteome