Guidelines for establishing locus specific databases.

Vihinen M, den Dunnen JT, Dalgleish R, Cotton RG.

Source

Institute of Biomedical Technology, FI-33014 University of Tampere, Finland; BioMediTech, FI-33520 Tampere, Finland. mauno.vihinen@uta.fi .

Abstract

Information about genetic variation has been collected for some twenty years into registries, known as locus specific databases (LSDBs), which nowadays often contain information in addition to the actual genetic variation. Several issues have to be taken into account when considering establishing and maintaining LSDBs and these have been discussed previously in a number of articles describing guidelines and recommendations. This information is widely scattered and, for a newcomer, it would be difficult to obtain the latest information and guidance. Here, a sequence of steps essential for establishing an LSDB is discussed together with guidelines for each step. Curators need to collect information from various sources, code it in systematic way and distribute to the research and clinical communities. In doing this, ethical issues have to be taken into account. To facilitate integration of information to, for example, analyze genotype-phenotype correlations, systematic data representation using established nomenclatures, data models and ontologies is essential. LSDB curation and maintenance comprises a number of tasks which can be managed by following logical steps. These resources are becoming ever more important and new curators are essential to ensure that we will have expertly curated databases for all disease related genes in the near future. ©2011 Wiley Periodicals, Inc.
© 2011 Wiley Periodicals, Inc.