RiceXPro: a platform for monitoring gene expression in japonica rice grown under natural field conditions.
Elucidating the function of all predicted genes in rice remains as the ultimate goal in cereal genomics in order to ensure the development of improved varieties that will sustain an expanding world population. We constructed a gene expression database (RiceXPro, URL: http://ricexpro.dna.affrc.go.jp/) to provide an overview of the transcriptional changes throughout the growth of the rice plant in the field. RiceXPro contains two data sets corresponding to spatiotemporal gene expression profiles of various organs and tissues, and continuous gene expression profiles of leaf from transplanting to harvesting. A user-friendly web interface enables the extraction of specific gene expression profiles by keyword and chromosome search, and basic data analysis, thereby providing useful information as to the organ/tissue and developmental stage specificity of expression of a particular gene. Analysis tools such as t-test, calculation of fold change and degree of correlation facilitate the comparison of expression profiles between two random samples and the prediction of function of uncharacterized genes. As a repository of expression data encompassing growth in the field, this database can provide baseline information of genes that underlie various agronomically important traits in rice.
Genome Resource Center, National Institute of Agrobiological Sciences, Kannondai 2-1-2, Tsukuba, Ibaraki 305-8602, Japan.
Yutaka
Y
Sato
Baltazar A
BA
Antonio
Nobukazu
N
Namiki
Hinako
H
Takehisa
Hiroshi
H
Minami
Kaori
K
Kamatsuki
Kazuhiko
K
Sugimoto
Yuji
Y
Shimizu
Hirohiko
H
Hirochika
Yoshiaki
Y
Nagamura
D030541:Databases, Genetic; D015870:Gene Expression; D020869:Gene Expression Profiling; D017343:Genes, Plant; D020411:Oligonucleotide Array Sequence Analysis; D012275:Oryza / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D017421:Sequence Analysis; D012984:Software; D014584:User-Computer Interface