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Sample GSM1132968 Query DataSets for GSM1132968
Status Public on Dec 01, 2013
Title Xist KO GS_1
Sample type RNA
 
Source name GS cells
Organism Mus musculus
Characteristics genotype: Xist KO
cell type: germ line stem cells
genetic background: DBA/2
Treatment protocol GS and ES cells were treated with trypsin and collected.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using Trizol (Invutrogen) and purified by RNAeasy column (QIAGEN).
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.2 ug RNA using the Low Input 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 Cy3-labeled RNA probes were hybridized to a whole mouse genome DNA oligo microarray (4 × 44K, Agilent) for 16 hours at 65°C according to the manufacturer’s instructions.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner at a 5 um resolution.
Description Gene expression of Xist KO GS cells
Data processing The scanned images were analyzed with Feature Extraction Software (Agilent).
 
Submission date May 02, 2013
Last update date Dec 01, 2013
Contact name Jiyoung Lee
Organization name Tokyo Medical and Dental University
Street address 1-5-45 Yushima
City Bunkyo-ku
State/province Tokyo
ZIP/Postal code 113-8510
Country Japan
 
Platform ID GPL11202
Series (1)
GSE46589 Comparison of gene expression between Xist KO GS cells and wild type GS

Data table header descriptions
ID_REF
VALUE Default Agilent Feature Extraction normalized signal intensity

Data table
ID_REF VALUE
A_51_P100174 4790.713
A_51_P100298 166.8662
A_51_P100309 7.048464
A_51_P100327 15.11264
A_51_P100537 18.51364
A_51_P100573 322.1403
A_51_P100625 10.59268
A_51_P100776 122.9756
A_51_P100787 5676.901
A_51_P100828 797.781
A_51_P100852 8.269196
A_51_P100997 79.9862
A_51_P101006 1189.587
A_51_P101075 29298.06
A_51_P101196 13535.81
A_51_P101228 250.2945
A_51_P101375 26.50475
A_51_P101460 17.17677
A_51_P101660 210.8038
A_51_P102122 56.56915

Total number of rows: 39429

Table truncated, full table size 865 Kbytes.




Supplementary file Size Download File type/resource
GSM1132968_US45102915_SLOT01_S01_GE1_1100_Jul11_1_4.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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