Abstract
We have built a microarray database, StressDB, for management of microarray data from our studies on stress-modulated genes in Arabidopsis. StressDB provides small user groups with a locally installable web-based relational microarray database. It has a simple and intuitive architecture and has been designed for cDNA microarray technology users. StressDB uses Windows™ 2000 as the centralized database server with Oracle™ 8i as the relational database management system. It allows users to manage microarray data and data-related biological information over the Internet using a web browser. The source-code is currently available on request from the authors and will soon be made freely available for downloading from our website athttp://arastressdb.cac.psu.edu.
Highlights
DNA microarray technology is rapidly increasing in popularity for measuring the transcript levels of many genes simultaneously
Arranged in the decreasing order of audience size and increasing order of audience specificity are (i) those available for public data submission (Gene Expression Omnibus at the National Center for Biotechnology Information (NCBI):http:// www.ncbi.nlm.nih.gov/geo/; Array Express at the European Bioinformatics Institute (EBI):http:// www.ebi.ac.uk/arrayexpress/), (ii) those that have been implemented within an institution and are available for public query
Database (SMD) at Stanford University:http:// www.dnachip.org/; Sherlock et al, 2001; ChipDB at the Whitehead Institute at MIT:http://young39. wi.mit.edu/chipdb_public/; Gene Expression Database (GXD) at the Jackson Laboratory:http://www. informatics.jax.org/; RNA Abundance Database (RAD) at University of Pennsylvania:http://www. cbil.upenn.edu/RAD2/) and (iii) those that have been designed for local installation by individual groups (Another Microarray Database (AMAD) at Stanford/Berkeley/UCSF:http://www.microarrays.org/ index.html and GeneX at NCGR: http://genex.ncgr. org/; Mangalam et al, 2001)
Summary
StressDB: A locally installable web-based relational microarray database designed for small user communities.
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