title: EuDBase: An online resource for automated EST analysis pipeline (ESTFrontier) and database for red seaweed Eucheuma denticulatum.
abstract: Functional genomics has proven to be an efficient tool in identifying genes involved in various biological functions. However the availability of commercially important seaweed Eucheuma denticulatum functional resources is still limited. EuDBase is the first seaweed online repository that provides integrated access to ESTs of Eucheuma denticulatum generated from samples collected from Kudat and Semporna in Sabah, Malaysia. The database stored 10,031 ESTs that are clustered and assembled into 2,275 unique transcripts (UT) and 955 singletons. Raw data were automatically processed using ESTFrontier, an in-house automated EST analysis pipeline. Data was collected in MySQL database. Web interface is implemented using PHP and it allows browsing and querying EuDBase through search engine. Data is searchable via BLAST hit, domain search, Gene Ontology or KEGG Pathway. A user-friendly interface allows the identification of sequences either using a simple text query or similarity search. The development of EuDBase is initiated to store, manage and analyze the E. denticulatum ESTs and to provide accumulative digital resources for the use of global scientific community. EuDBase is freely available from http://www.inbiosis.ukm.my/eudbase/.
authors.forename: Zeti Azura Mohamed
authors.initials: ZA
authors.lastname: Hussein
authors.forename: Kok Keong
authors.initials: KK
authors.lastname: Loke
authors.forename: Rabiatul Adawiah Zainal
authors.initials: RA
authors.lastname: Abidin
authors.forename: Roohaida
authors.initials: R
authors.lastname: Othman
references.citation: BMC Genomics. 2007 Nov 13;8:416
references.pmid: 17997864
references.citation: BMC Bioinformatics. 2005 Jun 16;6:151
references.pmid: 15960857
references.citation: Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W720-4
references.pmid: 16845106
references.citation: Genome Res. 1999 Sep;9(9):868-77
references.pmid: 10508846
references.citation: J Mol Biol. 1990 Oct 5;215(3):403-10
references.pmid: 2231712