CFGP: a web-based, comparative fungal genomics platform.
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.
Park
Jongsun
J
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.
Park
Bongsoo
B
Jung
Kyongyong
K
Jang
Suwang
S
Yu
Kwangyul
K
Choi
Jaeyoung
J
Kong
Sunghyung
S
Park
Jaejin
J
Kim
Seryun
S
Kim
Hyojeong
H
Kim
Soonok
S
Kim
Jihyun F
JF
Blair
Jaime E
JE
Lee
Kwangwon
K
Kang
Seogchan
S
Lee
Yong-Hwan
YH
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
D004271:DNA, Fungal; D005656:Fungal Proteins