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Sample GSM875522 Query DataSets for GSM875522
Status Public on Feb 04, 2013
Title ventral_Dentate_Gyrus_KOH_rep2
Sample type genomic
 
Channel 1
Source name ventral Dentate Gyrus, 5HT1A knockout offspring of a 5HT1A heterozygote mother, MspI
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: ventral Dentate Gyrus
offspring genotype: 5HT1A knockout
maternal genotype: 5HT1A heterozygote
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 ventral Dentate Gyrus, 5HT1A knockout offspring of a 5HT1A heterozygote mother, HpaII
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: ventral Dentate Gyrus
offspring genotype: 5HT1A knockout
maternal genotype: 5HT1A heterozygote
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 1.06407858
MM5MSPIS00000030 2.48642636
MM5MSPIS00000131 -1.4971408
MM5MSPIS00000132 -2.1996955
MM5MSPIS00000259 1.37377773
MM5MSPIS00000260 -0.2733395
MM5MSPIS00000282 0.26655942
MM5MSPIS00000285 0.57494277
MM5MSPIS00000335 0.18000018
MM5MSPIS00000336 -0.4883355
MM5MSPIS00000388 1.37140784
MM5MSPIS00000438 -2.8275142
MM5MSPIS00000452 -1.2775141
MM5MSPIS00000453 0.08498398
MM5MSPIS00000558 0.93210481
MM5MSPIS00000622 1.15310958
MM5MSPIS00000718 2.25361212
MM5MSPIS00000719 0.54183369
MM5MSPIS00000826 -1.2338246
MM5MSPIS00000939 -0.1310531

Total number of rows: 25720

Table truncated, full table size 700 Kbytes.




Supplementary file Size Download File type/resource
GSM875522_28526402_532.pair.gz 6.0 Mb (ftp)(http) PAIR
GSM875522_28526402_635.pair.gz 5.9 Mb (ftp)(http) PAIR
Processed data included within Sample table

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