More information XML output
| Name | KaPPA-View |
|---|---|
| Aliases | The Kazusa Plant Pathway Viewer |
| Description | The web-based tool KaPPA-View was developed for representing quantitative data for individual transcripts and/or metabolites on plant metabolic pathway maps. The presentation of data in this manner facilitates a good grasp of the transcripts and metabolites, leading to hypotheses of gene function in the metabolic pathway being examined. (cited from CiNii http://ci.nii.ac.jp/naid/110004822705/) New Features of KaPPA-View4: 1. A comprehensive review of the system was conducted, and the processing speed was improved dramatically compared to the previous versions. 2. As well as Windows, Mac OS X is now fully supported and you can use all the features on it. 3. The users can use their own metabolic pathway maps for the analyses. 4. As a function for the system developers, KaPPA-View4 offers features to display data directly from external systems such as databases and applications.(cited from original site http://kpv.kazusa.or.jp/kpv4/information/overview_en.html )
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| Type | Tool |
| Main Institutes of management | Kazusa DNA Research Institute. |
| Country of the Institute | Japan |
| URL of the site | http://kpv.kazusa.or.jp/kpv4/ |
| Interface | GUI |
| Input example | [Create Account] At first, push "Guest Login" button of the top page and next, click the menu "Create Account". Please input ”Login Name & Email" and then you got a e-mail with your password. [Use KaPPA-View] At first, input your Loginame and Password at the top page ( http://kpv.kazusa.or.jp/kpv4/ ) and nest, click "Temporary Upload" menu on the upper side of the page. Specify your experiment file path in the text box and click "Upload" button.
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| Keyword |
Gene expression | transcriptom | metabolom | omics | plant | pathway
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| Amount of the all data for download（Mbyte） | Method to obtain the all data. | 2 (KaPPA-View tool) | http://kpv.kazusa.or.jp/kpv4/information/tools_en.html |
| External resources (databases) in building the product. | Under investigation |
| Data type | Metabolite repression Gene expression |
| Biological species in the main concern |
Arabidopsis
,Rice ,Tomato ,Lotus japonicus
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| Conditions of use | User account is required ( User account is not required for download version.) |
| Frequency of updates (in last two years) | 2 |
| Last date of updates (date of confirmation) | 2010/12/30 (2011/01/04) |
| Main IDs used in the products | Under investigation |
| How to make a link to get access to each IDs. | None |
| external databases to which this database/tool have links | KEGG (http://www.genome.jp/kegg/) |
| Published papers (PubMed IDs) | 1. Tokimatsu T, Sakurai N, Suzuki H, Ohta H, Nishitani K, Koyama T, Umezawa T, Misawa N, Saito K and Shibata D (2005) KaPPA-view: a web-based analysis tool for integration of transcript and metabolite data on plant metabolic pathway maps. Plant Physiol, 138, 1289-1300 2. Sakurai N and Shibata D (2006) KaPPA-View for integrating quantitative transcriptomic and metabolomic data on plant metabolic pathway maps. J Pesticide Science, 31, 293-295 3. Tokimatsu T, Sakurai N, Suzuki H and Shibata D (2006) KaPPA-View: A tool for Integrating Transcriptomic and Metabolomic Data on Plant Metabolic Pathway Maps. In Saito K, Dixon RA and Willmitzer L eds, Biotechnology in Agriculture and Forestry, Vol. 57, pp. 155-163, Springer-Verlag, Berlin Heidelberg 4. Ogata Y, Sakurai N, Provart NJ, Steinhauser D and Krall L (2008) Bioinformatics Tools to Discover Co-Expressed Genes in Plants. In Kahl G and Meksem K eds, The Handbook of Plant Functional Genomics: Concepts and Protocols, pp. 309-335, WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim
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