E-AFMX-9 - Transcription profiling of 80 Arabidopsis tissues/cells (AtGenExpress data) see also E-TABM-17 for a re-annotated set with CEL files for download

Status
Released on 1 January 2005, last updated on 27 March 2012
Organism
Arabidopsis thaliana
Samples (237)
Array (1)
Protocols (4)
Description
The activity of genes and their encoded products can be regulated in several ways, but transcription is the primary level, since all other modes of regulation (RNA splicing, RNA and protein stability, etc.) are dependent on a gene being transcribed in the first place. The importance of transcriptional regulation has been underscored by the recent flood of global expression analyses, which have confirmed that transcriptional co-regulation of genes that act together is the norm, not the exception. Moreover, many studies suggest that evolutionary change is driven in large part by modifications of transcriptional programs. An essential first step toward deciphering the transcriptional code is to determine the expression pattern of all genes. With this goal in mind, an international effort to develop a gene expression atlas of Arabidopsis has been underway since fall 2003. This project, dubbed AtGenExpress, is funded by the DFG, and will provide the Arabidopsis community with access to a large set of Affymetrix microarray data. As part of this collaboration, we have generated expression data from 80 biologicaly different samples in triplicate. The focus of this data set is on different tissues and different developmental stages in wild type Columbia (Col-0) and various mutants.
Experiment types
transcription profiling by array, development or differentiation, organism part comparison, strain or line
Contacts
Detlef Weigel, Jan Lohmann, Markus Schmid
Citation
A gene expression map of Arabidopsis thaliana development. Schmid M.; Davison T.S.; Henz S.R.; Pape U.J.; Demar M.; Vingron M.; Scholkopf B.; Weigel D.; Lohmann J.U. Nat Genet 37(5):501-506 (2005), Europe PMC 15806101
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-AFMX-9.idf.txt
Sample and data relationshipE-AFMX-9.sdrf.txt
Raw data (20)Click to browse raw data
Experiment designE-AFMX-9.biosamples.png, E-AFMX-9.biosamples.svg
Array designA-AFFY-2.adf.txt
R ExpressionSetE-AFMX-9.eSet.r
Links