Databases

LOVD: Easy creation of a locus-specific sequence variation database using an “LSDB-in-a-box” approach†

  1. Ivo F.A.C. Fokkema,
  2. Johan T. den Dunnen,
  3. Peter E.M. Taschner*

Article first published online: 23 JUN 2005

DOI: 10.1002/humu.20201

Issue

Human Mutation

Human Mutation

Volume 26, Issue 2, pages 63–68, August 2005

Additional Information

How to Cite

Fokkema, I. F., den Dunnen, J. T. and Taschner, P. E. (2005), LOVD: Easy creation of a locus-specific sequence variation database using an “LSDB-in-a-box” approach. Human Mutation, 26: 63–68. doi: 10.1002/humu.20201

Author Information

  1. Center of Human and Clinical Genetics, Leiden University Medical Center, Leiden, the Netherlands

*Center for Human and Clinical Genetics, Leiden University Medical Center, Wassenaarseweg 72, P.O. Box 9503, 2300RA Leiden, The Netherlands

  1. †

    Communicated by Alastair Brown

Publication History

  1. Issue published online: 11 JUL 2005
  2. Article first published online: 23 JUN 2005
  3. Manuscript Accepted: 10 MAR 2005
  4. Manuscript Received: 30 NOV 2004

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Keywords:

  • LSDB;
  • database;
  • open source;
  • PHP;
  • MySQL;
  • mutation;
  • LMNA;
  • LOVD

Abstract

The completion of the human genome project has initiated, as well as provided the basis for, the collection and study of all sequence variation between individuals. Direct access to up-to-date information on sequence variation is currently provided most efficiently through web-based, gene-centered, locus-specific databases (LSDBs). We have developed the Leiden Open (source) Variation Database (LOVD) software approaching the “LSDB-in-a-Box” idea for the easy creation and maintenance of a fully web-based gene sequence variation database. LOVD is platform-independent and uses PHP and MySQL open source software only. The basic gene-centered and modular design of the database follows the recommendations of the Human Genome Variation Society (HGVS) and focuses on the collection and display of DNA sequence variations. With minimal effort, the LOVD platform is extendable with clinical data. The open set-up should both facilitate and promote functional extension with scripts written by the community. The LOVD software is freely available from the Leiden Muscular Dystrophy pages (www.DMD.nl/LOVD/). To promote the use of LOVD, we currently offer curators the possibility to set up an LSDB on our Leiden server. Hum Mutat 26(2), 1–6, 2005. © 2005 Wiley-Liss, Inc.

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