Atlas - a data warehouse for integrative bioinformatics

Background: We present a biological data warehouse called Atlas that locally stores and integrates biological sequences, molecular interactions, homology information, functional annotations of genes, and biological ontologies. The goal of the system is to provide data, as well as a software infrastructure for bioinformatics research and development. Description: The Atlas system is based on relational data models that we developed for each of the source data types. Data stored within these relational models are managed through Structured Query Language (SQL) calls that are implemented in a set of Application Programming Interfaces (APIs). The APIs include three languages: C++, Java, and Perl. The methods in these API libraries are used to construct a set of loader applications, which parse and load the source datasets into the Atlas database, and a set of toolbox applications which facilitate data retrieval. Atlas stores and integrates local instances of GenBank, RefSeq, UniProt, Huma...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: Sohrab P. Shah, Yong Huang, Tao Xu, Macaire M. S. Yuen, John Ling, B. F. Francis Ouellette
• Keywords: Atlas, Biological Data Warehouse, BMCBI 2005, Molecular Interactions