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Sample GSM2338978 Query DataSets for GSM2338978
Status Public on Mar 08, 2017
Title Wild-type rice leaves treated with 1 mM CuCl2 for 6 h replicate 3
Sample type RNA
 
Source name Wild-type rice leaves treated with 1 mM CuCl2 for 6 h
Organism Oryza sativa
Characteristics cultivar: Nihonmasari
genotype: Wild-type
tissue: leaves
agent: 1 mM CuCl2
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 3 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 -1.4902267
Os01g0100200|mRNA|AK059894|CDS+3'UTR 0.41454172
Os01g0100400|mRNA|AK101455|CDS+3'UTR -3.8548186
Os01g0100500|mRNA|AK067316|CDS+3'UTR -0.41616344
Os01g0100600|mRNA|AK121362|CDS+3'UTR -0.73535633
Os01g0100700|mRNA|AK059844|CDS+3'UTR 0.455925
Os01g0100700|mRNA|AK121523|CDS+3'UTR 0.70139885
Os01g0100800|mRNA|AK122012|CDS+3'UTR -0.071881294
Os01g0100900|COMBINER_EST|CI015509|0 1.6281118
Os01g0101200|mRNA|AK067866|CDS+3'UTR -4.582184
Os01g0101200|mRNA|AK104517|CDS+3'UTR -5.0694065
Os01g0101200|mRNA|AK104625|CDS+3'UTR -5.18254
Os01g0101200|mRNA|AK104752|CDS+3'UTR -5.266797
Os01g0101200|mRNA|AK119457|CDS+3'UTR -0.038517475
Os01g0101300|COMBINER_EST|CI016681|6 1.5433283
Os01g0101600|mRNA|AK099952|CDS+3'UTR -0.53870964
Os01g0101600|mRNA|AK103820|CDS+3'UTR 0.099497795
Os01g0101600|mRNA|AK122118|CDS+3'UTR 0.10653114
Os01g0101700|COMBINER_EST|CI525185|3 -4.1900663
Os01g0101800|mRNA|AK103498|CDS+3'UTR -0.5684819

Total number of rows: 42477

Table truncated, full table size 1964 Kbytes.




Supplementary file Size Download File type/resource
GSM2338978_US22502560_251524114829_S01_GE1_1105_Oct12_1_4.txt.gz 7.6 Mb (ftp)(http) TXT
Processed data included within Sample table
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