Overview
KaPPA-VIew4 is the web-based database which can represent user-uploaded '-omics' data on the metabolic pathway maps. The change of gene expressions and metabolite accumulations between the samples are visualized as hue of the gene and metabolite symbols. Furthermore, gene-to-gene and metabolite-to-metabolite relationships such as correlation coefficients of gene co-expressions can be overlay on the pathway maps. These function will help researchers to discover biological significances in the omics data.
The KaPPA-View Family
Species and the database name of gene co-expression correlation data (parentheses) are shown.
 KaPPA-View4 Classic: |
Genes for 10 plant species are assigned on the original Arabidopsis pathway maps. |
| Arabidopsis (ATTED-II, CoP), Rice (ATTED-II, CoP), Tomato (MiBASE), Lotus japonicus, Soybean (CoP), Barley (CoP), Poplar (CoP, Wheat (CoP), Grape (CoP), Maize (CoP) | |
 KaPPA-View4 KEGG: |
Genes for 15 model species are available on the KEGG maps. |
| Animals: Human (COXPRESdb), Mouse (COXPRESdb), Rat (COXPRESdb), Nematode, Fruit fly | |
| Plants: Arabidopsis (ATTED-II, CoP), Rice (ATTED-II, CoP), Poplar, Castor bean, Sorghum, Grape, Maize, Physcomitrella patens subsp. patens | |
| Bacteria: E. coli K-12 MG1655, Budding yeast | |
 KaPPA-View4 SOL |
Unigenes of solanaceae assembled by SGN and ITAG2.3 gene annotations are assigned on the KEGG maps. |
| Antirrhinum majus V1, Capsicum annuum V1, Coffea arabica V1, Coffea canephora V3, Ipomoea batatas V1, Nicotiana benthamiana V1, Nicotiana sylvestris V1, Nicotiana tabacum V2, Petunia hybrida V1, Solanum lycopersicum 2006 V2 (MiBASE), Solanum lycopersicum 2009-08-05(MiBASE), Solanum lycopersicum ITAG2.3, Solanum melongena V2, Solanum tuberosum V4 | |
The older systems
The services on KaPPA-View 2 and 3 have terminated on March 31th, 2010.
Please visit to KaPPA-View4 which is the latest version inheriting the all functions of the older systems.
 |
 |
 |
Publications
- Sakurai N et al. (2011) Nucleic Acids Research, 39, D677-684 [Journal Site]
- Ogata Y et al (2008) 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 [ISBN: 978-3-527-31885-8]
- Tokimatsu T et al. (2006) Saito K, Dixon RA and Willmitzer L eds, Biotechnology in Agriculture and Forestry, Vol. 57, pp. 155-163, Springer-Verlag, Berlin Heidelberg [ISBN: 978-3540297819]
- Sakurai N and Shibata D (2006) J Pesticide Science, 31, 293-295 [Journal Site]
- Tokimatsu T et al. (2005) Plant Physiol, 138, 1289-1300 [PID: 16010003]