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Sample GSM470582 Query DataSets for GSM470582
Status Public on Jan 22, 2010
Title Pou5f1-GFP MEF, biological replicate 2
Sample type RNA
 
Source name mouse embryonic fibroblast (MEF) haboring the GFP transgene driven by Pou5f1 promoter
Organism Mus musculus
Characteristics cell type: mouse embryonic fibroblast (MEF) haboring the GFP transgene driven by Pou5f1 promoter
Treatment protocol n.a.
Growth protocol MEFs were cultured at 37°C with 5% CO2. MEFs were maintained in 15% FBS-DMEM containing 20 ug ml-1 gentamicin.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol (Invitrogen) and purified with RNeasy minikit (Qiagen).
Label Biotin
Label protocol Biotinylated cRNA were prepared from 500 ng of total RNA according to the standard protocol (TotalPrep RNA Amplification Kit, Instruction Manual, Catalog #IL1791, Illumina).
 
Hybridization protocol 1.5 ug of cRNA were hybridized to Illumina Mouse-6 Expression BeadChip v1.1 for 20 hr at 58oC on Ilumina Hybridization Oven.
Scan protocol Illumina Mouse-6 Expression BeadChip v1.1 were washed and stained with streptavidin-Cy3 before scanning using the Illumina Bead Reader.
Description Pou5f1-GFP transgenic mice were from the Jackson Laboratory, Stock No 004654. Pou5f1-GFP MEFs were prepared from E13.5 embryos obtained from the intercross between male Pou5f1-GFP mice and female wild-type C57BL/6J mice.
Data processing The data were analyzed using Bead Array suite software. Rank invariant normalization method was chosen to obtain the signal intensity.
 
Submission date Nov 13, 2009
Last update date Jan 22, 2010
Contact name Dominic Jian Chien Heng
E-mail(s) hengjcd99@gis.a-star.edu.sg
Phone 65-96734683
Organization name Genome Institute of Singapore
Department Stem Cell and Developmental Biology
Lab Stem Cell and Development Biology 6
Street address 60 Biopolis Street #02-01, Genome Building
City Singapore
ZIP/Postal code 138672
Country Singapore
 
Platform ID GPL6105
Series (3)
GSE19021 Global gene expression analyses of the Nr5a2 reprogrammed cells
GSE19022 Global gene expression analysis of OSKM / N2SKM- infected MEFs over time course
GSE19023 The Nuclear Receptor Nr5a2 can replace Oct4 in the Reprogramming of Murine Somatic Cells to Pluripotent Cells

Data table header descriptions
ID_REF Illumina probe ID
VALUE Signal intensity
DETECTION P-VALUE detection p-value

Data table
ID_REF VALUE DETECTION P-VALUE
ILMN_2417611 53.82146 0.4935233
ILMN_1238136 52.39566 0.6165803
ILMN_2721178 300.4677 0
ILMN_2458840 56.22097 0.3141192
ILMN_1230777 2508.364 0
ILMN_2537239 1064.935 0
ILMN_1246069 1966.085 0
ILMN_2524361 57.73651 0.2318653
ILMN_1243193 727.6184 0
ILMN_1232042 54.7907 0.4138601
ILMN_2543689 1893.382 0
ILMN_1233188 198.9977 0
ILMN_1224596 115.1916 0
ILMN_1233643 56.97253 0.2668394
ILMN_1222139 141.4396 0
ILMN_1259789 78.56246 0
ILMN_2773981 931.0961 0
ILMN_2771349 1215.676 0
ILMN_1215157 759.9087 0
ILMN_1216623 605.3538 0

Total number of rows: 46632

Table truncated, full table size 1319 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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