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UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice

Plant hormones play important roles as signaling molecules in the regulation of growth and development by controlling the expression of downstream genes. Since the hormone signaling system represents a complex network involving functional cross-talk through the mutual regulation of signaling and met...

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Autores principales: Kudo, Toru, Akiyama, Kenji, Kojima, Mikiko, Makita, Nobue, Sakurai, Tetsuya, Sakakibara, Hitoshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3583028/
https://www.ncbi.nlm.nih.gov/pubmed/23314752
http://dx.doi.org/10.1093/pcp/pct003
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author Kudo, Toru
Akiyama, Kenji
Kojima, Mikiko
Makita, Nobue
Sakurai, Tetsuya
Sakakibara, Hitoshi
author_facet Kudo, Toru
Akiyama, Kenji
Kojima, Mikiko
Makita, Nobue
Sakurai, Tetsuya
Sakakibara, Hitoshi
author_sort Kudo, Toru
collection PubMed
description Plant hormones play important roles as signaling molecules in the regulation of growth and development by controlling the expression of downstream genes. Since the hormone signaling system represents a complex network involving functional cross-talk through the mutual regulation of signaling and metabolism, a comprehensive and integrative analysis of plant hormone concentrations and gene expression is important for a deeper understanding of hormone actions. We have developed a database named Uniformed Viewer for Integrated Omics (UniVIO: http://univio.psc.riken.jp/), which displays hormone-metabolome (hormonome) and transcriptome data in a single formatted (uniformed) heat map. At the present time, hormonome and transcriptome data obtained from 14 organ parts of rice plants at the reproductive stage and seedling shoots of three gibberellin signaling mutants are included in the database. The hormone concentration and gene expression data can be searched by substance name, probe ID, gene locus ID or gene description. A correlation search function has been implemented to enable users to obtain information of correlated substance accumulation and gene expression. In the correlation search, calculation method, range of correlation coefficient and plant samples can be selected freely.
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spelling pubmed-35830282013-02-27 UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice Kudo, Toru Akiyama, Kenji Kojima, Mikiko Makita, Nobue Sakurai, Tetsuya Sakakibara, Hitoshi Plant Cell Physiol Database Collection Plant hormones play important roles as signaling molecules in the regulation of growth and development by controlling the expression of downstream genes. Since the hormone signaling system represents a complex network involving functional cross-talk through the mutual regulation of signaling and metabolism, a comprehensive and integrative analysis of plant hormone concentrations and gene expression is important for a deeper understanding of hormone actions. We have developed a database named Uniformed Viewer for Integrated Omics (UniVIO: http://univio.psc.riken.jp/), which displays hormone-metabolome (hormonome) and transcriptome data in a single formatted (uniformed) heat map. At the present time, hormonome and transcriptome data obtained from 14 organ parts of rice plants at the reproductive stage and seedling shoots of three gibberellin signaling mutants are included in the database. The hormone concentration and gene expression data can be searched by substance name, probe ID, gene locus ID or gene description. A correlation search function has been implemented to enable users to obtain information of correlated substance accumulation and gene expression. In the correlation search, calculation method, range of correlation coefficient and plant samples can be selected freely. Oxford University Press 2013-02 2013-01-10 /pmc/articles/PMC3583028/ /pubmed/23314752 http://dx.doi.org/10.1093/pcp/pct003 Text en © The Author 2013. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists. http://creativecommons.org/licenses/by-nc/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Database Collection
Kudo, Toru
Akiyama, Kenji
Kojima, Mikiko
Makita, Nobue
Sakurai, Tetsuya
Sakakibara, Hitoshi
UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title_full UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title_fullStr UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title_full_unstemmed UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title_short UniVIO: A Multiple Omics Database with Hormonome and Transcriptome Data from Rice
title_sort univio: a multiple omics database with hormonome and transcriptome data from rice
topic Database Collection
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3583028/
https://www.ncbi.nlm.nih.gov/pubmed/23314752
http://dx.doi.org/10.1093/pcp/pct003
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