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Browse BarleyBase Experiment Data

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Barley single feature polymorphisms and drought stress gene expression
xinping,,cui, University of California, Riverside, CA (xinping.cui@ucr.edu)
Experiment design (21 hybridizations)
genotype
•Barke •Morex •Steptoe •OWB_Dominant •OWB_Recessive
stress condition
•Unstressed •Drought_Stressed •Pooled_Stressed_Unstressed

This experiment has been imported by PLEXdb from NCBI GEO (GSE3170)

Series_summary: Detection of single feature polymorphisms comparing ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Barley single feature polymorphisms and drought stress gene expression
Accession No: BB77
Microarray: Barley1
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•Barke   •Morex   •Steptoe   •OWB_Dominant   •OWB_Recessive
stress condition
•Unstressed   •Drought_Stressed   •Pooled_Stressed_Unstressed
Quality Control: biological replicates
Treatment summary:
 genotype  stress condition  # replicates
 Barke  Unstressed  0
 Barke  Drought_Stressed  0
 Barke  Pooled_Stressed_Unstressed  3
 Morex  Unstressed  0
 Morex  Drought_Stressed  0
 Morex  Pooled_Stressed_Unstressed  3
 Steptoe  Unstressed  0
 Steptoe  Drought_Stressed  0
 Steptoe  Pooled_Stressed_Unstressed  3
 OWB_Dominant  Unstressed  3
 OWB_Dominant  Drought_Stressed  3
 OWB_Dominant  Pooled_Stressed_Unstressed  0
 OWB_Recessive  Unstressed  3
 OWB_Recessive  Drought_Stressed  3
 OWB_Recessive  Pooled_Stressed_Unstressed  0
Total hybridizations: 21
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE3170)

Series_summary:
Detection of single feature polymorphisms comparing five barley genotypes. Gene expression under unstressed and drought stressed conditions.
Tissue from five entire five day old seedlings from drought stress or unstressed growth conditions was used for RNA extraction. For Barke, Morex and Stepoe the two types of RNA were pooled. For Oregon Wolfe Barley Dominant and Recessive (OWBs), the two types of RNA were handled separately. Targets from three biological replicates of each genotype-treatment were generated and transcript levels were determined using Affymetrix Barley1 GeneChip arrays. Probe set, followed by single probe, comparisons between genotypes allows the identification of single feature polymorphisms in comparisons between genotypes. For the OWBs, comparisons between stressed and unstressed conditions defines stress-regulated genes.

Keywords: repeat

Series_overall_design:
Three genotypes, three replicates each. Two additional genotypes, two sets of three replicates each.
Publication: none
Created: 2009-07-22 15:45:47
Last Update: 2009-07-22 16:05:25
GEO Accession GSE3170
Submitter: PLEXdb Curator
Name: xinping,,cui
Institution: University of California, Riverside, CA
Head of Laboratory: --
email(s):
Homepage:

 
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