VitisExpDB main page

Overview of the database

VitisExpDB is an online MySQL-PHP driven relational database that houses annotated EST and gene expression data. Currently, the database stores 300,000 EST sequences, from different grape varieties, their BLAST annotation details and gene ontology based structured vocabulary. Furthermore, putative homologs for each EST in other varieties along with information on their percent identity, phylogenetic relationship and common primers to amplify these putative homologous sequences can be retrieved. The database also has analysed global microarray expression profiles generated based on high density 60-mer gene expression chip consisting of ~20,000 non-redundant set of ESTs in host plant Vitis interaction with X. fastidiosa. This data was generated from 36 hybridization experiments from three time points: early (1 week), mid (6 weeks) and late (10 weeks) stages of disease development from both infected and non-infected tissues of resistant and susceptible genotypes. Furthermore, the generated expression profiles have been mapped onto metabolic pathways. User friendly multiple search windows for viewing and data retrieval, BLAST interface and the option to add user data directly to our database have been developed.