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Plant Expression Database

PLEXdb (Plant Expression Database) is a unified gene expression resource for plants and plant pathogens. PLEXdb is a genotype to phenotype, hypothesis building information warehouse, leveraging highly parallel expression data with seamless portals to related genetic, physical, and pathway data.

PLEXdb (http://www.plexdb.org), in partnership with community databases, supports comparisons of gene expression across multiple plant and pathogen species, promoting individuals and/or consortia to upload genome-scale data sets to contrast them to previously archived data. These analyses facilitate the interpretation of structure, function and regulation of genes in economically important plants. A list of Gene Atlas experiments highlights data sets that give responses across different developmental stages, conditions and tissues. Tools at PLEXdb allow users to perform complex analyses quickly and easily. The Model Genome Interrogator (MGI) tool supports mapping gene lists onto corresponding genes from model plant organisms, including rice and Arabidopsis. MGI predicts homologies, displays gene structures and supporting information for annotated genes and full-length cDNAs. The gene list-processing wizard guides users through PLEXdb functions for creating, analyzing, annotating and managing gene lists. Users can upload their own lists or create them from the output of PLEXdb tools, and then apply diverse higher level analyses, such as ANOVA and clustering. PLEXdb also provides methods for users to track how gene expression changes across many different experiments using the Gene OscilloScope. This tool can identify interesting expression patterns, such as up-regulation under diverse conditions or checking any gene’s suitability as a steady-state control.

Dataset Info

These fields are compatible with DCAT, an RDF vocabulary designed to facilitate interoperability between data catalogs published on the Web.
FieldValue
Authors
Dash, Sudhansu S.
(ORCID)
Van Hemert, John
Hong, Lu
Wise, Roger P.
(ORCID)
Dickerson, Julie A.
(ORCID)
Product Type
Database
Publisher
PLEXdb
Contact Name
Dickerson, Julie
Contact Email
Public Access Level
Public
Primary Article

Dash, S., Van Hemert, J., Hong, L., Wise, R., & Dickerson, J. (2011). PLEXdb: gene expression resources for plants and plant pathogens. Nucleic Acids Research, 40(D1), D1194-D1201.

License
Funding Source(s)
Agricultural Research Service
National Science Foundation
Program Code
005:037 - Department of Agriculture - Research and Education
Bureau Code
005:18 - Agricultural Research Service
Modified Date
2019-05-07
Release Date
2017-12-04
Ag Data Commons Keywords: 
  • Genomics & Genetics
  • Genomics & Genetics
  • Genome
  • Genomics & Genetics
  • Phenotypes
  • Online database
ISO Topic(s):