• DocumentCode
    1767128
  • Title

    Extension to Distributed Annotation System: Summary command

  • Author

    Chrysostomou, Charalambos ; Hastings, Robert ; Brookes, Anthony J.

  • Author_Institution
    Dept. of Genetics, Univ. of Leicester, Leicester, UK
  • fYear
    2014
  • fDate
    1-4 June 2014
  • Firstpage
    614
  • Lastpage
    617
  • Abstract
    Using the current version of the Distributed Annotation System (DAS) protocol to obtain data from large regions of interest from remote DAS servers can be a time and resource consuming process. Therefore it would be useful to know the amounts and types of features that exist in a region of interest before the DAS request is made. In the current DAS protocol (1.6), the types of data that exist with a DAS source can be obtained before the complete set of features are requested for a specific region using the feature command. Depending on the implementation of the types command in the DAS server, the number of features across the segment can also be obtained. However, counting of features is computationally intensive for every user request and so most DAS servers do not include it in their implementation. For these DAS servers in order for the user to obtain counts of features, the complete set of features needs to be obtained and re-analysed. Additionally in the current DAS protocol no parameter exists to include or exclude the count of features per type when needed. In this paper, an addition to DAS protocol is proposed and implemented in order to request a summary of the features that exist within a region of interest when needed. The summary command was implemented in order to broaden the functionalities, and extend the flexibility of the current DAS protocol. The summary functionality can conserve time and resources, especially for large regions of interest.
  • Keywords
    bioinformatics; client-server systems; public domain software; DAS protocol; DAS request; DAS source; data types; distributed annotation system; feature command; feature reanalysis; remote DAS servers; summary command; summary functionality; Bioinformatics; Biological cells; Distributed databases; Genomics; Protocols; Servers;
  • fLanguage
    English
  • Publisher
    ieee
  • Conference_Titel
    Biomedical and Health Informatics (BHI), 2014 IEEE-EMBS International Conference on
  • Conference_Location
    Valencia
  • Type

    conf

  • DOI
    10.1109/BHI.2014.6864439
  • Filename
    6864439