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Microarray analysis of gene expression under different light conditions
Miyako Kusano, RIKEN, PSC, Department of Metabolomics research group, Yokohama, Japan (mkusano005@psc.riken.jp)
Experiment design (20 hybridizations)
developmental stage name
•leaf •pericarp
light
•0 PPF •200 PPF •1000 PPF
time
•0 weeks •1 weeks •2 weeks

This experiment has been imported by PLEXdb from NCBI GEO (GSE35020)

Series_summary:
The size of tomato fruits are largely dependent ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Microarray analysis of gene expression under different light conditions
Accession No: LE20
Microarray: tomato10k
Visibility: public
Experiment Type:
Experiment Factor(s):
developmental stage name
•leaf   •pericarp
light
•0 PPF   •200 PPF   •1000 PPF
time
•0 weeks  •1 weeks  •2 weeks
Quality Control: biological replicates
Treatment summary:
 developmental stage name  light  time  # replicates
 leaf  0 PPF  0 weeks  3
 leaf  0 PPF  1 weeks  0
 leaf  0 PPF  2 weeks  0
 leaf  200 PPF  0 weeks  0
 leaf  200 PPF  1 weeks  2
 leaf  200 PPF  2 weeks  3
 leaf  1000 PPF  0 weeks  0
 leaf  1000 PPF  1 weeks  3
 leaf  1000 PPF  2 weeks  3
 pericarp  0 PPF  0 weeks  0
 pericarp  0 PPF  1 weeks  0
 pericarp  0 PPF  2 weeks  0
 pericarp  200 PPF  0 weeks  0
 pericarp  200 PPF  1 weeks  0
 pericarp  200 PPF  2 weeks  3
 pericarp  1000 PPF  0 weeks  0
 pericarp  1000 PPF  1 weeks  0
 pericarp  1000 PPF  2 weeks  3
Total hybridizations: 20
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE35020)

Series_summary:
The size of tomato fruits are largely dependent on growth conditions. To obtain insights on how light intensity contributes to translocation from a leaf and a fruit, we developed a plant irradiation system based on light-emitting diodes (LEDs) to a leaf. By using this system, we investigated the changes of transcript profiles of tomato leaves and fruits grown under different light conditions.

Series_overall_design:
20 samples were analyzed (14 leaf samples and 6 pericarp samples); 2-3 biological replicates were used.


PLEXdb Curator's Note:

Key to Sample labels at GEO:
200PPF B/200PPF C = leaf/low light/1 week = 2 reps
1000PPF A/ 1000PPF B/ 1000PPF C= leaf/high light/1 week= 3 reps
0 week A /0 week B/0 week C= leaf/control/ 0 week= 3 reps
200PPF AP/200PPF BP/200PPF CP= pericarp/low light/2 weeks= 3 reps
200PPF AL/200PPF BL/200PPF CL= leaf/low light/2 weeks= 3 reps
1000PPF AP/1000PPF BP/1000PPF CP= pericarp/high light/ 2 weeks/ 3 reps
1000PPF AL/1000PPF BL/1000PPF CL=leaf/hight light/2 weeks= 3 reps
Publication: 'Exploring tomato gene functions based on coexpression modules using graph clustering and differential coexpression approaches.', Fukushima A, Nishizawa T, Hayakumo M, Hikosaka S, Saito K, Goto E, Kusano M.
Plant Physiol 2012 Apr;158(4):1487-502.
pubmed: 22307966
Created: 2012-07-10 10:22:34
Last Update: 2012-07-10 11:46:32
Released: 2012-07-10
GEO Accession GSE35020
Submitter: PLEXdb Curator
Name: Miyako Kusano
Institution: RIKEN, PSC, Department of Metabolomics research group, Yokohama, Japan
Head of Laboratory: Atsushi Fukushima
email(s):
Homepage:

 
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