ASKGene, a system for automate DNA processing

Authors

  • Eden Cardoso Cardim Universidade Estadual de Santa Cruz, Laboratório de Bioinformática, Ilhéus-Itabuna, BA, Brasil
  • Wallace Vinicius Oliveira Reis Universidade Estadual de Santa Cruz, Núcleo de Biologia Computacional e Gestão de Informações Biotecnológicas, Ilhéus-Itabuna, BA, Brasil
  • Nicolas Carels Fundação Oswaldo Cruz, Instituto Oswaldo Cruz, Laboratório de Genômica Funcional e Bioinformática, Manguinhos, Rio de Janeiro, RJ, Brasil
  • Diego Gervásio Frías Suárez Universidade Estadual de Santa Cruz, Núcleo de Biologia Computacional e Gestão de Informações Biotecnológicas, Ilhéus-Itabuna, BA, Brasil

DOI:

https://doi.org/10.3395/reciis.v1i2.925

Keywords:

Gene annotation, Perl, relational database, PostgreSQL, open source

Abstract

Computational resources have become essential for genome project development. Distributed systems managing complex structures integrating graphical user interfaces, expensive data processing, data mining and large databases, have been proposed. Most consolidated sequencing laboratories have developed their own bioinformatics solutions. However, a portable and scalable system integrating all these aspects is not yet available to the scientific community. In this report, we present the prototype of such a system in open development at http://sourceforge.net/projects/askgene. It allows for the (i) accessibility of data and processes all along the data flow, (ii) data representation and ontology, (iii) workflow tuning, (iv) system architecture and documentation, (v) corporate development, (vi) manual annotation, (vii) bogus data processing, (viii) process parallelization and distribution, (ix) portability and scalability.

Downloads

Published

2007-12-31

How to Cite

Cardim, E. C., Reis, W. V. O., Carels, N., & Frías Suárez, D. G. (2007). ASKGene, a system for automate DNA processing. Revista Eletrônica De Comunicação, Informação & Inovação Em Saúde, 1(2). https://doi.org/10.3395/reciis.v1i2.925

Issue

Vol. 1 No. 2 (2007): Suplemento - Bioinformática e Saúde

Section

Original articles

License

Author’s rights:  The author retains unrestricted rights over his work.

Rights to reuse: Reciis adopts the Creative Commons License, CC BY-NC non-commercial attribution according to the Policy on Open Access to Knowledge by Oswaldo Cruz Foundation. With this license, access, download, copy, print, share, reuse, and distribution of articles is allowed, provided that it is for non-commercial use and with source citation, granting proper authorship credits and reference to Reciis. In such cases, no permission is required from the authors or editors.

Rights of authors’s deposit / self-archiving: The authors are encouraged to deposit the published version, along with the link of their article in Reciis, in institutional repositories.