ASKGene, a system for automate DNA processing - DOI: 10.3395/reciis.v1i2.Sup.100en

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.

Keywords

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