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CIPRO 2.5 : Ciona intestinalis protein database, a unique integrated repository of large-scale omics data, bioinformatic analyses and curated annotation, with user rating and reviewing functionality

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Title: CIPRO 2.5 : Ciona intestinalis protein database, a unique integrated repository of large-scale omics data, bioinformatic analyses and curated annotation, with user rating and reviewing functionality
Authors: Endo, Toshinori Browse this author →KAKEN DB
Ueno, Keisuke Browse this author →KAKEN DB
Yonezawa, Kouki Browse this author
Mineta, Katsuhiko Browse this author →KAKEN DB
Hotta, Kohji Browse this author →KAKEN DB
Satou, Yutaka Browse this author →KAKEN DB
Yamada, Lixy Browse this author
Ogasawara, Michio Browse this author →KAKEN DB
Takahashi, Hiroki Browse this author →KAKEN DB
Nakajima, Ayako Browse this author
Nakachi, Mia Browse this author
Nomura, Mamoru Browse this author
Yaguchi, Junko Browse this author
Sasakura, Yasunori Browse this author →KAKEN DB
Yamasaki, Chisato Browse this author
Sera, Miho Browse this author
Yoshizawa, Akiyasu C. Browse this author
Imanishi, Tadashi Browse this author
Taniguchi, Hisaaki Browse this author →KAKEN DB
Inaba, Kazuo Browse this author →KAKEN DB
Issue Date: Jan-2011
Publisher: Oxford University Press
Journal Title: Nucleic Acids Research
Volume: 39
Issue: suppl. 1
Start Page: D807
End Page: D814
Publisher DOI: 10.1093/nar/gkq1144
Abstract: The Ciona intestinalis protein database (CIPRO) is an integrated protein database for the tunicate species C. intestinalis. The database is unique in two respects: first, because of its phylogenetic position, Ciona is suitable model for understanding vertebrate evolution; and second, the database includes original large-scale transcriptomic and proteomic data. Ciona intestinalis has also been a favorite of developmental biologists. Therefore, large amounts of data exist on its development and morphology, along with a recent genome sequence and gene expression data. The CIPRO database is aimed at collecting those published data as well as providing unique information from unpublished experimental data, such as 3D expression profiling, 2D-PAGE and mass spectrometry-based large-scale analyses at various developmental stages, curated annotation data and various bioinformatic data, to facilitate research in diverse areas, including developmental, comparative and evolutionary biology. For medical and evolutionary research, homologs in humans and major model organisms are intentionally included. The current database is based on a recently developed KH model containing 36 034 unique sequences, but for higher usability it covers 89 683 all known and predicted proteins from all gene models for this species. Of these sequences, more than 10 000 proteins have been manually annotated. Furthermore, to establish a community-supported protein database, these annotations are open to evaluation by users through the CIPRO website. CIPRO 2.5 is freely accessible at http://cipro.ibio.jp/2.5.
Type: article
URI: http://hdl.handle.net/2115/45023
Appears in Collections:情報科学院・情報科学研究院 (Graduate School of Information Science and Technology / Faculty of Information Science and Technology) > 雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

Submitter: 遠藤 俊徳

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