title: CFGP: a web-based, comparative fungal genomics platform.
abstract: Since the completion of the Saccharomyces cerevisiae genome sequencing project in 1996, the genomes of over 80 fungal species have been sequenced or are currently being sequenced. Resulting data provide opportunities for studying and comparing fungal biology and evolution at the genome level. To support such studies, the Comparative Fungal Genomics Platform (CFGP; http://cfgp.snu.ac.kr), a web-based multifunctional informatics workbench, was developed. The CFGP comprises three layers, including the basal layer, middleware and the user interface. The data warehouse in the basal layer contains standardized genome sequences of 65 fungal species. The middleware processes queries via six analysis tools, including BLAST, ClustalW, InterProScan, SignalP 3.0, PSORT II and a newly developed tool named BLASTMatrix. The BLASTMatrix permits the identification and visualization of genes homologous to a query across multiple species. The Data-driven User Interface (DUI) of the CFGP was built on a new concept of pre-collecting data and post-executing analysis instead of the 'fill-in-the-form-and-press-SUBMIT' user interfaces utilized by most bioinformatics sites. A tool termed Favorite, which supports the management of encapsulated sequence data and provides a personalized data repository to users, is another novel feature in the DUI.
authors.affiliation: Fungal Bioinformatics Laboratory, Department of Agricultural Biotechnology, Center for Fungal Genetic Resource, Seoul National University, San 56-1, Sillim-9-dong, Seoul 151-921, Korea.
authors.forename: Jongsun
authors.initials: J
authors.lastname: Park
authors.forename: Bongsoo
authors.initials: B
authors.lastname: Park
authors.forename: Kyongyong
authors.initials: K
authors.lastname: Jung
authors.forename: Suwang
authors.initials: S
authors.lastname: Jang
authors.forename: Kwangyul
authors.initials: K
authors.lastname: Yu
authors.forename: Jaeyoung
authors.initials: J
authors.lastname: Choi
authors.forename: Sunghyung
authors.initials: S
authors.lastname: Kong
authors.forename: Jaejin
authors.initials: J
authors.lastname: Park
authors.forename: Seryun
authors.initials: S
authors.lastname: Kim
authors.forename: Hyojeong
authors.initials: H
authors.lastname: Kim
authors.forename: Soonok
authors.initials: S
authors.lastname: Kim
authors.forename: Jihyun F
authors.initials: JF
authors.lastname: Kim
authors.forename: Jaime E
authors.initials: JE
authors.lastname: Blair
authors.forename: Kwangwon
authors.initials: K
authors.lastname: Lee
authors.forename: Seogchan
authors.initials: S
authors.lastname: Kang
authors.forename: Yong-Hwan
authors.initials: YH
authors.lastname: Lee
mesh_terms: D019295:Computational Biology; D004271:DNA, Fungal / Q000737:chemistry; D030541:Databases, Genetic; D005656:Fungal Proteins / Q000737:chemistry; D016681:Genome, Fungal; D023281:Genomics; D020407:Internet; D012689:Sequence Homology, Nucleic Acid; D012984:Software; D014584:User-Computer Interface
chemical_list: D004271:DNA, Fungal; D005656:Fungal Proteins