In general, the expression of gene alters conditionally to catalyze a specific metabolic pathway.
Microarray-based datasets have been massively produced to monitor gene expression levels in parallel with numerous experimental treatments. Although several studies facilitated the linkage of gene expression dataand metabolic pathways, none of them are amassed for plants. Moreover, advanced analysis such as pathways enrichment or how genes express under different conditions is not rendered.
Therefore, EXPath was developed to not only comprehensively congregate the public microarray expressiondata from over 1000 samples in biotic stress, abiotic stress, and hormone secretion but also allow the usage of this abundant resource for coexpression analysis and differentially expression genes (DEGs) identification, finally inferring the enriched KEGG pathways and gene ontology (GO) terms of three model plants: Arabidopsis thaliana, Oryza sativa, and Zea mays. Users can access the gene expression patterns of interest under various conditions via five main functions (Gene Search, Pathway Search, DEGs Search, Pathways/GO Enrichment, and Coexpression analysis) in EXPath, which are presented by a user-friendly interface and valuable for further research.
In conclusion, EXPath, freely available at http://expath.itps.ncku.edu.tw, is a database resource that collects and utilizes gene expression profiles derived from microarray platforms under various conditions to infer metabolic pathways for plants.
The number of microarray samples integrated in EXPath
The number of genes collected in EXPath
The statistics of genes with valid expression data in EXPath
Plant Bioinformatics and Molecular Biology Laboratory
Institute of Tropical Plant Sciences and Microbiology
National Cheng Kung University
Tel: +886-6-2757575 ext.58311
Address: (70101) No.1, University Road, Tainan City, Taiwan (R.O.C)
Copyright © Institute of Tropical Plant Sciences and Microbiology, College of Biosciences and Biotechnology, National Cheng Kung University, Tainan Taiwan.