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Sample GSM825110 Query DataSets for GSM825110
Status Public on Nov 01, 2011
Title shoot meristem of wild type triploid hybrids-replicate1
Sample type RNA
 
Source name triploid wheat hybrid
Organism Aegilops tauschii x Triticum turgidum
Characteristics tissue: crown leaf
age: 3 wk
phenotype: wild type
line: wild type
Growth protocol Plants were grown at 23°C for 3 weeks.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from the crown tissues of WT and SGA lines , using an RNeasy Plant Mini kit (Qiagen). RNA quality was checked using an Agilent 2100 BioAnalyzer.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions. Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol Hybridization of the Cy3-labeled cRNA to the microarrays and washing were performed using a Gene Expression Hybridization kit and Gene Expression Wash Pack (Agilent Technologies) according to the manufacturer's instructions.
Scan protocol Signal intensities were detected by Feature Extraction software (Agilent Technologies). Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).
Description shoots containig shoot apical meristem
Gene expression in 3-week-old seedling leaves
Data processing The scanned images were analyzed with Feature Extraction Software 9.5 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
 
Submission date Oct 31, 2011
Last update date Nov 01, 2011
Contact name Shigeo Takumi
Organization name Kobe University
Department Graduate School of Agricultural Science
Lab Plant Genetics
Street address Rokkodai 1-1, Nada
City Kobe
State/province Hyogo
ZIP/Postal code 657-8501
Country Japan
 
Platform ID GPL9805
Series (1)
GSE33357 Dysfunction of mitotic cell division at shoot apices triggered severe growth abortion in interspecific hybrids between tetraploid wheat and Aegilops tauschii Coss.

Data table header descriptions
ID_REF
VALUE gProcessedSignal

Data table
ID_REF VALUE
12 4553.390851
13 25.25474114
15 405.1799728
16 4067.162165
17 917.6112323
18 7.457019664
19 7.020071715
20 16.98464143
21 48.76114625
22 196.9294471
23 1457.079443
24 9.709755527
25 1451.947857
27 439.6392689
28 122.2836424
29 36448.70825
31 164.4958866
33 856.347377
34 2054.589097
35 846.6691981

Total number of rows: 37826

Table truncated, full table size 652 Kbytes.




Supplementary file Size Download File type/resource
GSM825110_AR0086_05raw.txt.gz 1.7 Mb (ftp)(http) TXT
Processed data included within Sample table

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