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Sample GSM1132969 Query DataSets for GSM1132969
Status Public on Dec 01, 2013
Title Xist KO GS_2
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
VALUE Default Agilent Feature Extraction normalized signal intensity

Data table
A_51_P100174 4731.694
A_51_P100298 139.9477
A_51_P100309 6.83842
A_51_P100327 15.71849
A_51_P100537 16.53105
A_51_P100573 323.6492
A_51_P100625 11.47527
A_51_P100776 107.014
A_51_P100787 5466.942
A_51_P100828 821.874
A_51_P100852 22.656
A_51_P100997 77.53822
A_51_P101006 1224.15
A_51_P101075 28611.73
A_51_P101196 12827.79
A_51_P101228 264.9948
A_51_P101375 24.92386
A_51_P101460 18.72542
A_51_P101660 221.6863
A_51_P102122 50.98888

Total number of rows: 39429

Table truncated, full table size 865 Kbytes.

Supplementary file Size Download File type/resource
GSM1132969_US45102915_SLOT02_S01_GE1_1100_Jul11_1_1.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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