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SSBD: Systems Science of Biological Dynamics

Systems Science of Biological Dynamics (SSBD). Database provides a rich set of resources for analyzing quantitative biological data, such as single-molecule, cell, and gene expression nuclei. Quantitative biological data are collected from a variety of species, sources and methods. These include data obtained from both experiment and computational simulation. These quantitative numerical data are represented in a new Biological Dynamics Markup Language (BDML). March 19, 2015:. Jan 30, 2015:. Some images ...

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SSBD: Systems Science of Biological Dynamics | ssbd.qbic.riken.jp Reviews

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Systems Science of Biological Dynamics (SSBD). Database provides a rich set of resources for analyzing quantitative biological data, such as single-molecule, cell, and gene expression nuclei. Quantitative biological data are collected from a variety of species, sources and methods. These include data obtained from both experiment and computational simulation. These quantitative numerical data are represented in a new Biological Dynamics Markup Language (BDML). March 19, 2015:. Jan 30, 2015:. Some images ...

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SSBD: Systems Science of Biological Dynamics | ssbd.qbic.riken.jp Reviews

https://ssbd.qbic.riken.jp

Systems Science of Biological Dynamics (SSBD). Database provides a rich set of resources for analyzing quantitative biological data, such as single-molecule, cell, and gene expression nuclei. Quantitative biological data are collected from a variety of species, sources and methods. These include data obtained from both experiment and computational simulation. These quantitative numerical data are represented in a new Biological Dynamics Markup Language (BDML). March 19, 2015:. Jan 30, 2015:. Some images ...

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News

http://ssbd.qbic.riken.jp/news

Oct 4, 2016:. SSBD REST API coordsXYZ is currently under maintenance and is unavailable due to recent update. The service will resume shortly after the updates. Please check back later. Oct 4, 2016:. 14 BDML-files in C. elegans have been updated and 123 BDML-files in C. elegans, D. discoideum, PC-12 cell, and so on have been added. Oct 1, 2016:. System maintenance notice (Date: Oct. 4 (JST). May 20, 2016:. 14 BDML-files and the corresponding microscopy images in C. elegans have been added. Apr 11, 2016:.

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Latest release of BDML and PDPML schemas can be found here. Some browsers will try to render the XSD files when you click on the link below. This can result in either a blank screen or a screen of unformatted text. Please choose to either download the file or view the source. Please see BDML manual. Version 0.20, updated on August 28, 2014. The main schema used to describe quantitative biological and dynamical data. Version 0.18, updated on October 03, 2014. Version 0.06, update on June 18, 2014. The ope...

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Resources

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As of Oct. 3, 2016 there are 458 BDML-files. Number of images in SSBD. Bashar et al. 2012. 2,800 (.tif). Masumoto et al. 2010. Harima et al. 2013. Ochiai et al. 2015. Tanaka and Fujita 2015. 14,573 (.tif). Keller et al. 2008. Keller et al. 2010. Bao et al. 2006. Kyoda et al. 2013. 2,221,560 (IPLab format; .ipm). Toyoshima et al. 2016. 13,954 (.tif). Takayama et al. 2016. 77,306 (.tif). Kimura and Onami 2005. Cronin et al. 2005. Komatsuzaki et al. 2015. 1,800 (.avi). Cultured cell (rat; PC-12), NA. Acute ...

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Manuals

http://ssbd.qbic.riken.jp/manuals

Systems Science of Biological Dynamics Database. Systems Science of Biological Dynamics database (SSBD) is an open repository for quantitative data with spatiotemporal information and microscopic images. Quantitative data are represented by using a unified data format, the Biological Dynamics Markup Language. Images downloadable as uploaded raw files. SSBD utilises OMERO internally to manage microscopic images and their metadata. SSBD also provides a REST API. And NBDC RDF Portal. Types of data, e.g&...

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Copyright notice

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The Systems Science of Biological Dynamics (SSBD). Users of this database may reproduce data required for their own scientific, educational, academic and non-commercial use. However, users of the database are required to acknowledge or reference this web site in their publications. Beyond such usage, users of the present database shall not reproduce, distribute or publicly communicate material parts of the present database without the prior written consent of RIKEN.

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SSBD: Systems Science of Biological Dynamics Database. WDDD: Worm Developmental Dynamics Database. Cell division pattern analysis. DBRF-MEGN method supplementary information.

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ニュース - バイオサイエンスデータベースセンター - NBDC

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生命科学系データベースアーカイブ H-InvDB 東海大学今西規教授を追加しました。トーゴーの日シンポジウム2016 統合データベース、実りの時へ 2016年10月5日 10月6日の参加申し込みを開始しました。特に、研究開発においてはこれまで、１高度なデータベース検索プラットフォームの構築、新しいツールの提供、さらには、生命科学系コンテンツをウェブ上で分散した状態で統合的に扱うための技術開発、２分野ゲノム、プロテオーム、メタボローム、グライコーム、フェノーム等ごとに産出される情報を網羅的に収集して整理することによって、生命科学のさまざまな領域の知識を集積する生命科学系コンテンツに関するプログラムを支援してきました。さらにデータベース利用者の方々による活用事例のご紹介や、国内のデータベース関係者によるポスター発表などを通じて、ライフサイエンスにおけるデータベースの開発運用利活用について広く議論する場としてトーゴーの日シンポジウム2016 統合データベース、実りの時へを2日間にわたり開催いたします。日時 2016年10月5日水 13:00 17:40. 理化学研究所生命シス...

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National Bioscience Database Center

http://biosciencedbc.jp/en

In order to promote life science researches in Japan, NBDC makes databases easier to use. With this aim, NBDC and collaborators make and operate the services and websites below. DB Integration over Life Sciences. Life Science Database Archive. DB Integration for Individual Fields. Human Genome Variation Database. DDBJ: DNA Data Bank of Japan. PDBj: Protein Data Bank Japan. TogoProt: Protein-oriented Cross-DB Search. JPOST: Japan Proteome Standard Repository/Database. PGDBj: Plant Genome DataBase Japan.

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第37回分子生物学会

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会期 2014年11月25日火 27日木 10:00 19:30. 会場パシフィコ横浜展示ホールA B C バイオデータベースコーナーコーナーレイアウト. 日本DNAデータバンク DDBJ 、情報システム研究機構国立遺伝学研究所 DDBJセンター. Protein Data Bank Japan PDBj:日本蛋白質構造データバンク. 独立行政法人医薬基盤研究所創薬基盤研究部、独立行政法人医薬基盤研究所難病疾患資源研究部. 情報システム研究機構ライフサイエンス統合データベースセンター DBCLS. ポータルサイトでは目的のDBを一覧から探すカタログ、様々なDBを一括検索できる横断検索、DBを丸ごとダウンロードできるアーカイブのほか、昨年からはあらゆるヒト関連データの受け皿である NBDCヒトDB もサービスを開始しました。 URL http:/ biosciencedbc.jp/. 日本 DNA データバンク DDBJ. 情報システム研究機構国立遺伝学研究所 DDBJ センター. URL http:/ pdbj.org/. 本課題では、生物種や、個体細胞の違いを...

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ssbd.qbic.riken.jp

SSBD: Systems Science of Biological Dynamics

Systems Science of Biological Dynamics (SSBD). Database provides a rich set of resources for analyzing quantitative biological data, such as single-molecule, cell, and gene expression nuclei. Quantitative biological data are collected from a variety of species, sources and methods. These include data obtained from both experiment and computational simulation. These quantitative numerical data are represented in a new Biological Dynamics Markup Language (BDML). March 19, 2015:. Jan 30, 2015:. Some images ...

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