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Plant MPSS databases: signature-based transcriptional resources for analyses of mRNA and small RNA
1Department of Plant and Soil Sciences, University of Delaware Newark, DE 19714, USA 2Delaware Biotechnology Institute, University of Delaware Newark, DE 19714, USA
*To whom correspondence should be addressed. Tel: +1 302 831 3418; Fax: +1 302 831 4841; Email: meyers{at}dbi.udel.edu
Received August 15, 2005. Revised October 11, 2005. Accepted October 11, 2005.
MPSS (massively parallel signature sequencing) is a sequencing-based technology that uses a unique method to quantify gene expression level, generating millions of short sequence tags per library. We have created a series of databases for four species (Arabidopsis, rice, grape and Magnaporthe grisea, the rice blast fungus). Our MPSS databases measure the expression level of most genes under defined conditions and provide information about potentially novel transcripts (antisense transcripts, alternative splice isoforms and regulatory intergenic transcripts). A modified version of MPSS has been used to perform deep profiling of small RNAs from Arabidopsis, and we have recently adapted our database to display these data. Interpretation of the small RNA MPSS data is facilitated by the inclusion of extensive repeat data in our genome viewer. All the data and the tools introduced in this article are available at http://mpss.udel.edu.
The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors
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