TY - JOUR
T1 - CFGP
T2 - A web-based, comparative fungal genomics platform
AU - Park, Jongsun
AU - Park, Bongsoo
AU - Jung, Kyongyong
AU - Jang, Suwang
AU - Yu, Kwangyul
AU - Choi, Jaeyoung
AU - Kong, Sunghyung
AU - Park, Jaejin
AU - Kim, Seryun
AU - Kim, Hyojeong
AU - Kim, Soonok
AU - Kim, Jihyun F.
AU - Blair, Jaime E.
AU - Lee, Kwangwon
AU - Kang, Seogchan
AU - Lee, Yong Hwan
PY - 2008/1
Y1 - 2008/1
N2 - 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.
AB - 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.
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U2 - 10.1093/nar/gkm758
DO - 10.1093/nar/gkm758
M3 - Article
C2 - 17947331
AN - SCOPUS:38549176698
SN - 0305-1048
VL - 36
SP - D562-D571
JO - Nucleic acids research
JF - Nucleic acids research
IS - SUPPL. 1
ER -