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Sample GSM2338961 Query DataSets for GSM2338961
Status Public on Mar 08, 2017
Title Wild-type rice leaves treated with warter for 6 h replicate 1
Sample type RNA
 
Source name Wild-type rice leaves treated with warter for 6 h
Organism Oryza sativa
Characteristics cultivar: Nihonmasari
genotype: Wild-type
tissue: leaves
agent: warter
time point: 6 h
Treatment protocol The leaf disks (6 mmϕ) were excised from the uppermost rice leaf blades of 1.5 month-old plants. Then the leaf disks were floated on water or 1 mM CuCl2.
Growth protocol Wild-type rice plants (Oryza sativa L., cv. Nihonmasari) and cpm2 mutants were grown in a glass house under natural daylight.
Extracted molecule total RNA
Extraction protocol RNeasy Plant Mini Kit (Qiagen)
Label Cy3
Label protocol Low RNA input Linear Amplification/Labeling Kit (Agilent)
 
Hybridization protocol Agilent protocol G4140-90040
Scan protocol Agilent Technologies Scanner G2505C US22502560
Description Biological replicate 1 of 3.
Data processing After data was analyzed by Fearure Extraction software (Agilent), data normalization was performed using Subio Platform with Basic Plug-in (Subio Inc).
 
Submission date Oct 06, 2016
Last update date Mar 08, 2017
Contact name Koji Miyamoto
E-mail(s) miyamoto@nasu.bio.teikyo-u.ac.jp
Phone +81-28-627-7566
Organization name Teikyo University
Department Department of Biosciences
Street address 1-1 Toyosatodai
City Utsunomiya
State/province Tochigi
ZIP/Postal code 320-8551
Country Japan
 
Platform ID GPL8852
Series (1)
GSE87698 Effect of copper (II) chloride treatment on rice leaves

Data table header descriptions
ID_REF
VALUE Normalized signal intensity (log 2)

Data table
ID_REF VALUE
Os01g0100100|COMBINER_EST|CI448596|0 0.07622814
Os01g0100200|mRNA|AK059894|CDS+3'UTR -0.44397938
Os01g0100400|mRNA|AK101455|CDS+3'UTR 0.17549086
Os01g0100500|mRNA|AK067316|CDS+3'UTR -0.022116661
Os01g0100600|mRNA|AK121362|CDS+3'UTR 0.031565666
Os01g0100700|mRNA|AK059844|CDS+3'UTR 0.019269943
Os01g0100700|mRNA|AK121523|CDS+3'UTR 0.18495369
Os01g0100800|mRNA|AK122012|CDS+3'UTR 0.05514908
Os01g0100900|COMBINER_EST|CI015509|0 -0.17640686
Os01g0101200|mRNA|AK067866|CDS+3'UTR -0.8149481
Os01g0101200|mRNA|AK104517|CDS+3'UTR -0.66864777
Os01g0101200|mRNA|AK104625|CDS+3'UTR -0.66162395
Os01g0101200|mRNA|AK104752|CDS+3'UTR -0.7269716
Os01g0101200|mRNA|AK119457|CDS+3'UTR -1.2316843
Os01g0101300|COMBINER_EST|CI016681|6 0.15644932
Os01g0101600|mRNA|AK099952|CDS+3'UTR -0.019117355
Os01g0101600|mRNA|AK103820|CDS+3'UTR -0.3948431
Os01g0101600|mRNA|AK122118|CDS+3'UTR -0.31969643
Os01g0101700|COMBINER_EST|CI525185|3 -0.3836584
Os01g0101800|mRNA|AK103498|CDS+3'UTR -0.68057585

Total number of rows: 42477

Table truncated, full table size 1991 Kbytes.




Supplementary file Size Download File type/resource
GSM2338961_US22502560_251524114825_S01_GE1_1105_Oct12_1_3.txt.gz 7.6 Mb (ftp)(http) TXT
Processed data included within Sample table
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