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Sample GSM1372022 Query DataSets for GSM1372022
Status Public on Apr 22, 2014
Title MEFs_SKO+Ga_rep1
Sample type RNA
 
Source name MEF, SKO+Ga, Day8, Rep1
Organism Mus musculus
Characteristics cell type: embryonic fibroblast
Treatment protocol MEFs were infected with certain virus and then cultured in DMEM/High Glucose plus +15%FBS+NEAA+Gluta Max+Sodium Pyruvate+lif for 6 days.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIZOL Reagent (Cat#15596-018,Life technologies, Carlsbad, CA, US)following the manufacturer’s instructions and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US).Qualified total RNA was further purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany) and RNase-Free DNase Set (Cat#79254, QIAGEN, GmBH, Germany).
Label Cy3
Label protocol Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One-Color (Cat#5190-2305, Agilent technologies, Santa Clara, CA, US), following the manufacturer’s instructions. Labeled cRNA were purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany).
 
Hybridization protocol Each Slide was hybridized with 1.65μg Cy3-labeled cRNA using Gene Expression Hybridization Kit (Cat#5188-5242, Agilent technologies, Santa Clara, CA, US) in Hybridization Oven (Cat#G2545A, Agilent technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. After 17 hours hybridization, slides were washed in staining dishes (Cat#121, Thermo Shandon, Waltham, MA, US) with Gene Expression Wash Buffer Kit(Cat#5188-5327, Agilent technologies, Santa Clara, CA, US), followed the manufacturer’s instructions。
Scan protocol Slides were scanned by Agilent Microarray Scanner (Cat#G2565CA, Agilent technologies, Santa Clara, CA, US) with default settings, Dye channel: Green, Scan resolution=3μm, 20bit.
Description Gene expression of MEFs infected with SKO+Ga
Data processing Data were extracted with Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US). Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US).
 
Submission date Apr 21, 2014
Last update date Apr 22, 2014
Contact name Keshi Chen
Organization name Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Science
Street address 190 Kai Yuan Avenue
City Guangzhou
ZIP/Postal code 510530
Country China
 
Platform ID GPL7202
Series (2)
GSE56943 Genes regulated by Gadd45a during somatic cell reprogramming
GSE56944 Genes and miRNAs regulated by Gadd45a during somatic cell reprogramming

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_52_P616356 2.9878752
A_52_P580582 2.9503946
A_52_P403405 2.9992144
A_52_P819156 3.8189735
A_51_P331831 5.629482
A_51_P430630 3.012268
A_52_P502357 3.014341
A_52_P299964 6.887945
A_51_P356389 4.793392
A_52_P684402 9.019525
A_51_P414208 3.0232093
A_51_P280918 11.021879
A_52_P613688 5.386613
A_52_P258194 5.189253
A_52_P229271 6.466526
A_52_P214630 4.5525274
A_52_P579519 9.681578
A_52_P979997 3.044618
A_52_P453864 5.5171137
A_52_P655842 3.0550919

Total number of rows: 41174

Table truncated, full table size 906 Kbytes.




Supplementary file Size Download File type/resource
GSM1372022_SKO+Ga_251486838683_S01_GE1_107_Sep09_1_4.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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