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. 2003 Aug 20:4:32.
doi: 10.1186/1471-2105-4-32. Epub 2003 Aug 20.

The Longhorn Array Database (LAD): an open-source, MIAME compliant implementation of the Stanford Microarray Database (SMD)

Patrick J Killion  1 , Gavin Sherlock, Vishwanath R Iyer
Affiliations

The Longhorn Array Database (LAD): an open-source, MIAME compliant implementation of the Stanford Microarray Database (SMD)

Patrick J Killion et al. BMC Bioinformatics. .

Abstract

Background: The power of microarray analysis can be realized only if data is systematically archived and linked to biological annotations as well as analysis algorithms.

Description: The Longhorn Array Database (LAD) is a MIAME compliant microarray database that operates on PostgreSQL and Linux. It is a fully open source version of the Stanford Microarray Database (SMD), one of the largest microarray databases. LAD is available at http://www.longhornarraydatabase.org

Conclusions: Our development of LAD provides a simple, free, open, reliable and proven solution for storage and analysis of two-color microarray data.

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Figures

Figure 1
Figure 1
Architecture of LAD deployment. LAD is accessed exclusively through a web browser. Additionally, it relies completely on the open-source technologies Linux and PostgreSQL for operation. Organism annotations are kept up to date via a scripted linkage to external databases. The Saccharomyces Genome Database (SGD – ) and the National Center for Biotechnology Information (NCBI – ) are shown as examples.
See this image and copyright information in PMC

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References

    1. Gardiner-Garden M, Littlejohn TG. A comparison of microarray databases. Brief Bioinform. 2001;2:143–158. - PubMed
    1. Ermolaeva O, Rastogi M, Pruitt KD, Schuler GD, Bittner ML, Chen Y, Simon R, Meltzer P, Trent JM, Boguski MS. Data management and analysis for gene expression arrays. Nat Genet. 1998;20:19–23. doi: 10.1038/1670. - DOI - PubMed
    1. Saal LH, Troein C, Vallon-Christersson J, Gruvberger S, Borg A, Peterson C. BioArray Software Environment (BASE): a platform for comprehensive management and analysis of microarray data. Genome Biol. 2002;3:SOFTWARE0003. doi: 10.1186/gb-2002-3-8-software0003. - DOI - PMC - PubMed
    1. Brazma A, Parkinson H, Sarkans U, Shojatalab M, Vilo J, Abeygunawardena N, Holloway E, Kapushesky M, Kemmeren P, Lara GG, Oezcimen A, Rocca-Serra P, Sansone SA. ArrayExpress--a public repository for microarray gene expression data at the EBI. Nucleic Acids Res. 2003;31:68–71. doi: 10.1093/nar/gkg091. - DOI - PMC - PubMed
    1. Sherlock G, Hernandez-Boussard T, Kasarskis A, Binkley G, Matese JC, Dwight SS, Kaloper M, Weng S, Jin H, Ball CA, Eisen MB, Spellman PT, Brown PO, Botstein D, Cherry JM. The Stanford Microarray Database. Nucleic Acids Res. 2001;29:152–155. doi: 10.1093/nar/29.1.152. - DOI - PMC - PubMed

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