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Series GSE5617 Query DataSets for GSE5617
Status Public on Jan 22, 2007
Title AtGenExpress: Light treatments
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary AtGenExpress: A multinational coordinated effort to uncover the transcriptome of the multicellular model organism Arabidopsis thaliana (Hybridisations done at NASC).
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.
Series 1: Growth conditions: Sterilized seeds will be stratified at 4°C for 3 days, exposed to white light for 2 h to induce germination, and grown on MS agar plates (0.9 % agar) without sugar in total darkness for 4 days at 22°C. Seedlings will then be transferred to the light conditions described for each slide below for 1 h (to identify early induced genes) and 4 hrs (maximum expression of the first initial light response of most target genes), respectively. All light treatments will be done in parallel to minimize the number of dark controls. All samples will be done in triplicate and only with shoots.
Experimenter name = Thomas Kretsch
Experimenter institute = AtGenExpress
Keywords: genetic_modification_design; organism_part_comparison_design; development_or_differentiation_design
Overall design 48 samples were used in this experiment
Contributor(s) Kretsch T, Townsend H, Emmerson Z, Schildknecht B
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Submission date Aug 25, 2006
Last update date Aug 28, 2018
Contact name Nottingham Arabidopsis Stock Centre (NASC)
Phone +44 (0)115 951 3237
Fax +44 (0)115 951 3297
Organization name Nottingham Arabidopsis Stock Centre (NASC)
Department School of Biosciences, University of Nottingham
Street address Sutton Bonington Campus
City Loughborough
ZIP/Postal code LE12 5RD
Country United Kingdom
Platforms (1)
GPL198 [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array
Samples (48)
GSM131169 AtGen_D-1_1-DL_REP1_ATH1
GSM131170 AtGen_D-2_1-FL_REP1_ATH1
GSM131171 AtGen_D-3_1-PL_REP1_ATH1
Affiliated with GSE69995
BioProject PRJNA96913

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE5617_RAW.tar 110.3 Mb (http)(custom) TAR (of CEL)

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