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Sample GSM1132971 Query DataSets for GSM1132971
Status Public on Dec 01, 2013
Title ES_1
Sample type RNA
Source name ES cells
Organism Mus musculus
Characteristics genotype: wildtype
cell type: embryonic stem cells
genetic background: C57BL/6
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 ES 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 1004.472
A_51_P100298 96.58609
A_51_P100309 19.99824
A_51_P100327 24.23558
A_51_P100537 30.08292
A_51_P100573 310.9577
A_51_P100625 70.79791
A_51_P100776 41.73917
A_51_P100787 3655.617
A_51_P100828 3068.258
A_51_P100852 68.60275
A_51_P100997 100.2436
A_51_P101006 167.7982
A_51_P101075 4223.727
A_51_P101196 7736.388
A_51_P101228 297.9321
A_51_P101375 42.32117
A_51_P101460 57.39251
A_51_P101660 260.6691
A_51_P102122 13.1438

Total number of rows: 39429

Table truncated, full table size 865 Kbytes.

Supplementary file Size Download File type/resource
GSM1132971_US45102915_SLOT02_S01_GE1_1100_Jul11_1_3.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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