NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM843800 Query DataSets for GSM843800
Status Public on Jan 06, 2012
Title EB9 control biological replicate 2
Sample type RNA
 
Source name embyoid bodies
Organism Mus musculus
Characteristics sample type: embroid bodies
treatment: none
Extracted molecule total RNA
Extraction protocol Total RNAs were prepared with Qiagen Rneasy minikit according to manufacturer’s protocol
Label Cy3
Label protocol 500 ng of total RNA from each sample were amplified by Oligo-dT-T7 reverse transcription and labeled by in vitro transcription with T7 RNA polymerase in the presence of Cy3-CTP using the Quick Amp Labeling kit (Agilent) and purified using RNAeasy columns (Qiagen, Hilden, Germany)
 
Hybridization protocol After fragmentation, 1650 ng of labeled cRNA from each sample was hybridized in in situ hybridization oven (Agilent) for 17 h at 65ºC and washed during 1 min at rt in Gene Expression Wash Buffer 1 (Agilent) and 1 min at 37 ºC with Gene Expression Wash buffer 2 (Agilent).
Scan protocol The intensity data of each individual hybridization were extracted and the quality was assessed with the Feature Extraction software 10.7 (Agilent).
Data processing Raw data was corrected for background noise using the normexp method. Quantile normalization was applied to assure comparability across samples.
 
Submission date Dec 06, 2011
Last update date Jan 06, 2012
Contact name Luciano Di Croce
E-mail(s) luciano.dicroce@crg.eu
Phone +34933160132
Organization name Centre for Genomic Regulation
Street address Dr. Aiguader, 88
City Barcelona
ZIP/Postal code 08003
Country Spain
 
Platform ID GPL10333
Series (1)
GSE34191 Non-Overlapping Functions of the Polycomb group Cbx Family of Proteins in Embryonic Stem Cells

Data table header descriptions
ID_REF
VALUE normalized log2 intensity values

Data table
ID_REF VALUE
1 15.31065955
2 6.166785527
3 6.198429624
4 6.165979897
5 6.185962621
6 6.270360876
7 6.308668789
8 6.262623427
9 6.220295725
10 6.206084688
11 6.345310152
12 8.615505382
13 6.496389552
14 12.11697696
15 7.562816119
16 11.42408105
17 12.03236678
18 7.246777759
19 6.708699722
20 7.340884709

Total number of rows: 45220

Table truncated, full table size 770 Kbytes.




Supplementary file Size Download File type/resource
GSM843800_HM_4000252665510538_Cy3_EB9-Ctr2_1_1.txt.gz 9.2 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap