JESAM

JESAM is a software tool designed to create customized EST-derived databases, which are useful for mapping, polymorphism discovery, disease gene hunting, and other genomic research applications. It compares EST and full-length mRNA sequences to create overlap databases with CORBA interfaces that allow flexible global access. The software uses a PVM process farm for parallel sequence comparisons and stores previous results to allow for incremental updates. The resulting databases have been published and are available for use with prototypical applets. JESAM outperformed UniGene Mouse and Rat databases in a comparison, highlighting the advantages of contrasting perspectives on complex data. The software is available as two Jar files containing Java, C, C++, and IDL code.

Topic

Gene expression;DNA;Functional, regulatory and non-coding RNA

Detail

  • Operation: Gene expression profile clustering;Sequence alignment

  • Software interface: Command-line user interface

  • Language: Java;C++;C

  • License: -

  • Cost: Free

  • Version name: 0.8.1

  • Credit: EU grant BIO 4.

  • Input: -

  • Output: -

  • Contact: J. D. Parsons jparsons@littlest.co.uk

  • Collection: -

  • Maturity: -

Publications

  • JESAM: CORBA software components to create and publish EST alignments and clusters.
  • Parsons JD and Rodriguez-Tomé P. JESAM: CORBA software components to create and publish EST alignments and clusters. JESAM: CORBA software components to create and publish EST alignments and clusters. 2000; 16:313-25. doi: 10.1093/bioinformatics/16.4.313
  • https://doi.org/10.1093/bioinformatics/16.4.313
  • PMID: 10869029
  • PMC: -

Download and documentation

< Back to DB search