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Sample GSM875530 Query DataSets for GSM875530
Status Public on Feb 04, 2013
Title ventral_Dentate_Gyrus_ES_rep3
Sample type genomic
 
Channel 1
Source name embryonic stem cell, MspI
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: embryonic stem cell
restriction enzyme: MspI
Extracted molecule genomic DNA
Extraction protocol DNA extraction as carried out with the QIAGEN Puregene Gentra cell kit. DNA was dissolved in 10mM Tris(tris[hydroxymethyl]aminomethane)-HCL, pH 8.0.
Label Cy3
Label protocol Random 9-mers pre-labels with either Cy3 or Cy5
 
Channel 2
Source name embryonic stem cell, HpaII
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: embryonic stem cell
restriction enzyme: HpaII
Extracted molecule genomic DNA
Extraction protocol DNA extraction as carried out with the QIAGEN Puregene Gentra cell kit. DNA was dissolved in 10mM Tris(tris[hydroxymethyl]aminomethane)-HCL, pH 8.0.
Label Cy5
Label protocol Random 9-mers pre-labels with either Cy3 or Cy5
 
 
Hybridization protocol Hybridizations were carried out for 18hr at 42C in the NimbleGen Service Laboratory. See Roche nimblegen website and PMID 16075461 (Selzer RR, Richmond TA, Pofahl NJ, Green RD, Eis PS, et al. (2005)
Scan protocol Scanning was carried out using a GenePix 4000B scanner (Axon Instuments, Sunnyvale, CA)
Data processing Data was preprocessed and normalized using the HELP data analysis package (Thompson et al, Bioinformatics 2008) implemented in R.
 
Submission date Feb 14, 2012
Last update date Feb 04, 2013
Contact name Miklos Toth
E-mail(s) mtoth@med.cornell.edu
Organization name Weill Cornell Medical College
Department Department of Pharmacology
Lab Toth Lab
Street address 1300 York Ave. Room W-506
City New York
State/province NY
ZIP/Postal code 10065
Country USA
 
Platform ID GPL10283
Series (2)
GSE35815 Maternal Influence on Exonic CpG Island Methylation in the Developing Hippocampus [HELP]
GSE35856 Maternal Influence on Exonic CpG Island Methylation in the Developing Hippocampus

Data table header descriptions
ID_REF
VALUE Log2 ratio (HpaII/MspI)

Data table
ID_REF VALUE
MM5MSPIS00000029 1.16794492
MM5MSPIS00000030 2.28879835
MM5MSPIS00000131 1.28394825
MM5MSPIS00000132 -0.6511594
MM5MSPIS00000259 1.79625966
MM5MSPIS00000260 0.0459441
MM5MSPIS00000282 0.08148215
MM5MSPIS00000285 1.76448889
MM5MSPIS00000335 1.59792907
MM5MSPIS00000336 0.60597623
MM5MSPIS00000388 -0.74302
MM5MSPIS00000438 -1.3787321
MM5MSPIS00000452 -1.3349721
MM5MSPIS00000453 -1.2863256
MM5MSPIS00000558 0.58757647
MM5MSPIS00000622 2.08464125
MM5MSPIS00000718 2.52114006
MM5MSPIS00000719 2.20780184
MM5MSPIS00000826 0.09690729
MM5MSPIS00000939 -0.4262274

Total number of rows: 25720

Table truncated, full table size 700 Kbytes.




Supplementary file Size Download File type/resource
GSM875530_28542502_532.pair.gz 6.0 Mb (ftp)(http) PAIR
GSM875530_28542502_635.pair.gz 5.9 Mb (ftp)(http) PAIR
Processed data included within Sample table

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