NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2338959 Query DataSets for GSM2338959
Status Public on Mar 08, 2017
Title Control (0 h) of wild-type rice leaves replicate 1
Sample type RNA
 
Source name Control (0 h) of wild-type rice leaves
Organism Oryza sativa
Characteristics cultivar: Nihonmasari
genotype: Wild-type
time point: Control (0 h)
tissue: leaves
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 0.030611992
Os01g0100200|mRNA|AK059894|CDS+3'UTR -0.097990036
Os01g0100400|mRNA|AK101455|CDS+3'UTR -0.005176067
Os01g0100500|mRNA|AK067316|CDS+3'UTR -0.035075188
Os01g0100600|mRNA|AK121362|CDS+3'UTR 0.001252174
Os01g0100700|mRNA|AK059844|CDS+3'UTR -0.035593987
Os01g0100700|mRNA|AK121523|CDS+3'UTR 0.040818214
Os01g0100800|mRNA|AK122012|CDS+3'UTR -0.011924744
Os01g0100900|COMBINER_EST|CI015509|0 -0.006933212
Os01g0101200|mRNA|AK067866|CDS+3'UTR -0.20156574
Os01g0101200|mRNA|AK104517|CDS+3'UTR -0.17721081
Os01g0101200|mRNA|AK104625|CDS+3'UTR -0.19849873
Os01g0101200|mRNA|AK104752|CDS+3'UTR -0.21222591
Os01g0101200|mRNA|AK119457|CDS+3'UTR -0.044376135
Os01g0101300|COMBINER_EST|CI016681|6 0.10812664
Os01g0101600|mRNA|AK099952|CDS+3'UTR -0.12945461
Os01g0101600|mRNA|AK103820|CDS+3'UTR -0.02052784
Os01g0101600|mRNA|AK122118|CDS+3'UTR -0.018024445
Os01g0101700|COMBINER_EST|CI525185|3 -0.006749153
Os01g0101800|mRNA|AK103498|CDS+3'UTR 0.09623957

Total number of rows: 42477

Table truncated, full table size 2006 Kbytes.




Supplementary file Size Download File type/resource
GSM2338959_US22502560_251524114825_S01_GE1_1105_Oct12_1_1.txt.gz 7.6 Mb (ftp)(http) TXT
Processed data included within Sample table
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap