A C++ computational environment for biomolecular sequence management

M. L. Chiusano, Takashi Gojobori, G. Toraldo*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

1 Scopus citations

Abstract

The wide production of biomolecular data of the last 30 years, mainly due to the rapid evolving of technologies as well as to the accomplishment of the Genome Projects, led to the necessity of appropriate computational approaches for data storage, manipulation and analyses, giving place to a fast evolving area of Biology: Computational Biology or Bioinformatics. We propose here a new method for the storage of the sequences and their analyses using the C++ programming language, checking the effectiveness of an object oriented approach for new models, suitable to manage data representation and analyses, to improve the efficiency of computational methodologies to solve problems of general interest in bioinformatics. We developed a framework with the aim to decrease the computational costs for the storage and some basic manipulations of nucleic acid sequences. The remarkable reduction of memory requirements with no loss of efficiency makes this approach a first well promising step in order to get a more efficient environment for the manipulation and the management of nucleic acid data sets, in a field of research with hard challenges for Computer and Life Sciences.

Original languageEnglish (US)
Pages (from-to)165-180
Number of pages16
JournalComputational Management Science
Volume2
Issue number3
DOIs
StatePublished - Jul 1 2005

Keywords

  • Bioinformatics
  • Biological data compression
  • Bit format

ASJC Scopus subject areas

  • Management Information Systems
  • Information Systems

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