Development of KaPPA-View4 for omics studies on Jatropha and a database system KaPPA-Loader for construction of local omics databases
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- Sakurai Nozomu
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Ogata Yoshiyuki
- RIKEN Plant Science Center RIKEN Plant Science Center
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- Ara Takeshi
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Sano Ryosuke
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Akimoto Nayumi
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Hiruta Atsushi
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Suzuki Hideyuki
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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- Kajikawa Masataka
- Nara Institute of Science and Technology Nara Institute of Science and Technology
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- Widyastuti Utut
- Research Center for Bioresources and Biotechnology, Bogor Agricultural University Research Center for Bioresources and Biotechnology, Bogor Agricultural University
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- Suharsono Sony
- Research Center for Bioresources and Biotechnology, Bogor Agricultural University Research Center for Bioresources and Biotechnology, Bogor Agricultural University
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- Yokota Akiho
- Nara Institute of Science and Technology Nara Institute of Science and Technology
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- Akashi Kinya
- Nara Institute of Science and Technology Nara Institute of Science and Technology
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- Kikuchi Jun
- RIKEN Plant Science Center RIKEN Plant Science Center
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- Shibata Daisuke
- Kazusa DNA Research Institute Kazusa DNA Research Institute
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抄録
The publication of the whole genome sequence of Jatropha curcas L. has contributed to the study of gene functions of this plant, especially in data-driven investigations such as transcriptome and proteome analyses. Metabolomics analyses of Jatropha have also been reported in recent years. However, the analytical tools for omics data from Jatropha are limited. We prepared a set of pathway maps where the predicted genes of Jatropha were assigned based on KEGG pathway maps, and developed an omics viewer named KaPPA-View4-Jatropha where the pathway maps were implemented. Out of 40,929 predicted genes, 8085 genes were mapped on the KEGG Metabolism maps, other KEGG maps, or gene category maps that were generated from gene classification data of KEGG BRITE. Two transcriptome datasets, four metabolome datasets and one gene co-expression dataset were registered in the viewer. To facilitate data sharing of unpublished omics data among research collaborators, we developed a local database system, KaPPA-Loader. These data mining environments and the supporting database system will help Jatropha researchers to discover key genes such as those involved in oil production, biosynthesis of toxic compounds, and stress resistance. KaPPA-View4-Jatropha and KaPPA-Loader are available from the KaPPA-View portal site (http://kpv.kazusa.or.jp/).
収録刊行物
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- Plant Biotechnology
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Plant Biotechnology 29 (2), 131-135, 2012
日本植物バイオテクノロジー学会
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詳細情報 詳細情報について
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- CRID
- 1390001204327618560
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- NII論文ID
- 10030804196
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- NII書誌ID
- AA11250821
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- COI
- 1:CAS:528:DC%2BC38Xht1Kksb%2FK
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- ISSN
- 13476114
- 13424580
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- NDL書誌ID
- 023783533
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- 本文言語コード
- en
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- データソース種別
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- JaLC
- NDL
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