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OryzaExpress specifications

Information


Unique identifier OMICS_04086
Name OryzaExpress
Restrictions to use None
Maintained Yes

Taxon


  • Plants and Fungi
    • Oryza sativa

Publication for OryzaExpress

OryzaExpress citations

 (6)
library_books

RiceMetaSys for salt and drought stress responsive genes in rice: a web interface for crop improvement

2017
BMC Bioinformatics
PMCID: 5622590
PMID: 28964253
DOI: 10.1186/s12859-017-1846-y

[…] ate genes from the already existing information such as the expression microarray data available in the public domain. In rice, using the microarray data, several publically accessible databases like OryzaExpress ([], http://plantomics.mind.meiji.ac.jp/OryzaExpress/ ), RicePLEX ([], http://www.plexdb.org/plex.php?database=Rice ), Rice Oligonucleotide Array database (ROAD) [], RiceSRTFDB ([], http: […]

library_books

Proteomics Coupled with Metabolite and Cell Wall Profiling Reveal Metabolic Processes of a Developing Rice Stem Internode

2017
Front Plant Sci
PMCID: 5507963
PMID: 28751896
DOI: 10.3389/fpls.2017.01134

[…] bserved if two or more unique peptides were measured for it across all iTRAQ labeled replicates. The ID of identified proteins was converted to Rice Genome Annotation Project ID with the converter at OryzaExpress: http://bioinf.mind.meiji.ac.jp/OryzaExpress/ID_converter.php. […]

library_books

Ascribing Functions to Genes: Journey Towards Genetic Improvement of Rice Via Functional Genomics

2016
Curr Genomics
PMCID: 4869004
PMID: 27252584
DOI: 10.2174/1389202917666160202215135

[…] tp://www.ricearray.org/matrix.search.shtml), RiceXpro (http://ricexpro.dna.affrc.go.jp/), RiceGE, PLEXdb (http:// www.plexdb.org/plex.php?database=Rice), Oryza express (http://bioinf.mind.meiji.ac.jp/OryzaExpress/, Rise array net (http://www.ggbio.com/arraynet/), RED (http:// cdna02. dna.affrc.go.jp/RED/) NGS RGAP (http://rice.plant biology.msu.edu/expression.shtml), and UniVio (http://univio.psc. […]

library_books

Co expression and co responses: within and beyond transcription

2012
Front Plant Sci
PMCID: 3492870
PMID: 23162560
DOI: 10.3389/fpls.2012.00248

[…] based co-expression applications, for example ATTED-II (, ), AraNet (), Expression Angler of the Bio-Array Resource (BAR; ), CressExpress (), CSB.DB (), KappaViewer (), GeneCAT (), Genevestigator (), OryzaExpress (), and VirtualPlant () have been developed (Table ).One of the best examples of co-expression analysis in Arabidopsis is cellulose synthase (CESA) genes in the secondary cell wall metabo […]

library_books

The Rice Oligonucleotide Array Database: an atlas of rice gene expression

2012
PMCID: 4883718
PMID: 24279809
DOI: 10.1186/1939-8433-5-17

[…] explore gene expressions across a wide variety of biological contexts for rice and other species, but it is commercial and not completely publicly available (Hruz et al.[]). Other databases including OryzaExpress (Hamada et al.[]), RicePLEX within the Plant Expression Database (PLEXdb) (Dash et al.[]), Bio-Array Resource for Plant Biology (BAR) (Toufighi et al.[]) and Yale Virtual Center for Cellu […]

library_books

Advances in Omics and Bioinformatics Tools for Systems Analyses of Plant Functions

2011
PMCID: 3233218
PMID: 22156726
DOI: 10.1093/pcp/pcr153

[…] mple, the node graph-based network visualization of co-expressed genes has been widely used in various plant species and has been implemented in web-accessible information resources such as ATTED-II, OryzaExpress and PlaNet (, , ). SeedNet and SCoPNet, at The Virtual Seed Web Resource (http://vseed.nottingham.ac.uk/), are genome-wide network models of transcriptional interactions in dormant and ge […]

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