PalmXplore: oil palm gene database. (18th September 2018)

• Record Type: Journal Article
• Authors: Sanusi, Nik Shazana Nik Mohd; Rosli, Rozana; Halim, Mohd Amin Ab; Chan, Kuang-Lim; Nagappan, Jayanthi; Azizi, Norazah; Amiruddin, Nadzirah; Tatarinova, Tatiana V; Low, Eng-Ti Leslie
• Is Part Of: Database. Volume 2018(2018)
• Publication Date: 2018-09-18
• Subjects: Biology -- Databases -- Periodicals; Bioinformatics -- Periodicals; 570.285
• DOI: 10.1093/database/bay095
• Languages: English
• ISSNs: 1758-0463

Abstract

Abstract: A set of Elaeis guineensis genes had been generated by combining two gene prediction pipelines: Fgenesh++ developed by Softberry and Seqping by the Malaysian Palm Oil Board. PalmXplore was developed to provide a scalable data repository and a user-friendly search engine system to efficiently store, manage and retrieve the oil palm gene sequences and annotations. Information deposited in PalmXplore includes predicted genes, their genomic coordinates, as well as the annotations derived from external databases, such as Pfam, Gene Ontology and Kyoto Encyclopedia of Genes and Genomes. Information about genes related to important traits, such as those involved in fatty acid biosynthesis (FAB) and disease resistance, is also provided. The system offers Basic Local Alignment Search Tool homology search, where the results can be downloaded or visualized in the oil palm genome browser (MYPalmViewer). PalmXplore is regularly updated offering new features, improvements to genome annotation and new genomic sequences. The system is freely accessible at http://palmxplore.mpob.gov.my .