title: ProteoMix: an integrated and flexible system for interactively analyzing large numbers of protein sequences.
abstract: ProteoMix is a suite of JAVA programs for identifying, annotating and predicting regions of interest in large sets of amino acid sequences, according to systematic and consistent criteria. It is based on two concepts (1) the integration of results from different sequence analysis tools increases the prediction reliability; and (2) the integration protocol is critical and needs to be easily adaptable in a case-by-case manner. ProteoMix was designed to analyze simultaneously multiple protein sequences using several bioinformatics tools, merge the results of the analyses using logical functions and display them on an integrated viewer. In addition, new sequences can be added seamlessly to an analysis performed on an initial set of sequences. ProteoMix has a modular design, and bioinformatics tools are run on remote servers accessed using the Internet Simple Object Access Protocol (SOAP), ensuring the swift implementation of additional tools. ProteoMix has a user-friendly interactive graphical user interface environment and runs on PCs with Microsoft OS.
  
  
  BACKGROUND
  ProteoMix is freely available for academic users at http://bio.gsc.riken.jp/ProteoMix/
authors.affiliation: Protein Research Group, RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan.
authors.forename: Eisuke
authors.initials: E
authors.lastname: Chikayama
authors.forename: Atsushi
authors.initials: A
authors.lastname: Kurotani
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Kuroda
authors.forename: Shigeyuki
authors.initials: S
authors.lastname: Yokoyama
mesh_terms: D003628:Database Management Systems; D030562:Databases, Protein; D016247:Information Storage and Retrieval / Q000379:methods*; D011381:Programming Languages; D011506:Proteins / Q000032:analysis / Q000737:chemistry* / Q000235:genetics; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software; D018511:Systems Integration; D014584:User-Computer Interface
chemical_list: D011506:Proteins