ESTree db: a Tool for Peach Functional Genomics
Author Information
Author(s): Lazzari Barbara, Caprera Andrea, Vecchietti Alberto, Stella Alessandra, Milanesi Luciano, Pozzi Carlo
Primary Institution: Parco Tecnologico Padano
Hypothesis
The aim of this work was to produce an extensive and easily accessible EST database for peach with links to other related sources.
Conclusion
The resulting database is a comprehensive resource of data and links related to peach EST sequences.
Supporting Evidence
- A total of 6,155 successful EST sequences were obtained from four in-house prepared cDNA libraries.
- Another 12,475 peach EST sequences were downloaded from public databases and added to the ESTree db.
- The ESTree db encompasses 18,630 sequences representing eight libraries.
- Putative SNP detection was performed with the AutoSNP program.
- All sequences were annotated with blastx against the GenBank nr db and with GOblet against the Gene Ontology db.
Takeaway
The ESTree db is like a big library of peach gene information that helps scientists understand how peaches grow and develop.
Methodology
An automated pipeline was developed to process EST sequences, and data were collected in a MySQL database with a php-based web interface for querying.
Limitations
The database is constantly growing, which may lead to inconsistencies in data representation over time.
Digital Object Identifier (DOI)
Want to read the original?
Access the complete publication on the publisher's website