http://www.cnr.it/ontology/cnr/individuo/prodotto/ID55795
ESTree db: a tool for peach functional genomics (Articolo in rivista)
- Type
- Label
- ESTree db: a tool for peach functional genomics (Articolo in rivista) (literal)
- Anno
- 2005-01-01T00:00:00+01:00 (literal)
- Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#doi
- 10.1186/1471-2105-6-S4-S16 (literal)
- Alternative label
Lazzari, B; Caprera, A; Vecchietti, A; Stella, A; Milanesi, L; Pozzi, C (2005)
ESTree db: a tool for peach functional genomics
in BMC bioinformatics
(literal)
- Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#autori
- Lazzari, B; Caprera, A; Vecchietti, A; Stella, A; Milanesi, L; Pozzi, C (literal)
- Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#numeroVolume
- Rivista
- Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#pagineTotali
- Note
- ISI Web of Science (WOS) (literal)
- Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#affiliazioni
- Parco Tecnol Padano; CISI; Ist Tecnol Biomed (literal)
- Titolo
- ESTree db: a tool for peach functional genomics (literal)
- Abstract
- Results: The ESTree db version as of April 2005 encompasses 18,630 sequences representing eight libraries. Contig assembly was performed with CAP3. Putative single nucleotide polymorphism (SNP) detection was performed with the AutoSNP program and a search engine was implemented to retrieve results. All the sequences and all the contig consensus sequences were annotated both with blastx against the GenBank nr db and with GOblet against the viridiplantae section of the Gene Ontology db. Links to NiceZyme (Expasy) and to the KEGG metabolic pathways were provided. A local BLAST utility is available. A text search utility allows querying and browsing the database. Statistics were provided on Gene Ontology occurrences to assign sequences to Gene Ontology categories. (literal)
- Background: The ESTree db http://www.itb.cnr.it/estree/ represents a collection of Prunus persica expressed sequenced tags (ESTs) and is intended as a resource for peach functional genomics. A total of 6,155 successful EST sequences were obtained from four in-house prepared cDNA libraries from Prunus persica mesocarps at different developmental stages. Another 12,475 peach EST sequences were downloaded from public databases and added to the ESTree db. An automated pipeline was prepared to process EST sequences using public software integrated by in-house developed Perl scripts and data were collected in a MySQL database. A php-based web interface was developed to query the database. (literal)
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