統合TV 統合TVは、ライフサイエンス統合データベースセンター(DBCLS)が発信する生命科学分野の有用なデータベース(DB)やウェブツールの活用法を動画で紹介するウェブサイトです。くわしくは はじめての方へ をご覧ください。ご質問、ご要望は、お問い合わせ もしくは ライフサイエンスQA からお願いします。TogoTV beta ('togo' means 'integration' in Japanese) is an archive of tutorial videos expounding how to use biological databases and tools. Although most of contents are currently depicted in Japanese, you can find English contents in TogoTV international. Please post any comments, suggestions, and requests at each content page, e-mail to the address described at the bottom of each page or contact form. This site is provided by Database Center for Life Science (DBCLS) and funded by MEXT Integrated Database Project in Japan.

新しい統合TVはこちらから!→ 統合TV

TogoTV international

TogoTV paper published in Briefings in Bioinformatics. (2011/7/29)

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2011-09-05

_ [presentation][English] EBI Roadshow at DBCLS - Access to Genes and Genomes with Ensembl

Access to Genes and Genomes with Ensembl

The purpose of the roadshow is to train experimental biologists how to make the most of some of Europe's most widely used public biological databases, such as Ensembl, ArrayExpress, BioMart, Expression Atlas and Reactome. The roadshow combines presentations and hands-on practical sessions. Trainees are guided through the selected databases and tools by expert trainers from the European Bioinformatics Institute (EBI), the Swiss Institute of Bioinformatics (SBI), the European Patent Office (EPO) and the BRENDA project. More information is available on the Bioinformatics Roadshow website.

On the first day of the Bioinformatics Roadshow (Sep. 5) in Japan, the lecture and exercises were held at DBCLS. In this talk, Jana Vandrovcova makes a presentation entitled "Access to Genes and Genomes with Ensembl". The presentation and exercise slides are here.

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Keywords: DBCLS,EBI,ensembl,database,data mining,biomart,comparative,genomics,proteomics,orthologues,protein,genome,sequence,variation,SNP

【Digest】The scene is played when you click on the link below.

  1. 1. Introduction to EBI: overview of most relevant databases (0:00:32)
  2. 2. Origin, goals, data and analysis in the Ensembl project Website Walkthrough (0:36:55)
  3. 3. Retrieving datasets using the data mining tool BioMart (1:09:00)
  4. 4. Comparative genomics and proteomics: orthologues, protein families, whole genome alignments and syntenic regions (1:25:09)
  5. 5. Variations: Single nucleotide polymorphisms in Ensembl, comparison of strains, breeds, individuals using the browser and BioMart (1:57:59)

You can also watch YouTube version of this movie.


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文部科学省委託研究開発事業「統合データベースプロジェクト」MEXT Integrated Database Project
大学共同利用機関法人 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 統合TVチームDatabase Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS)
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