NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM875516 Query DataSets for GSM875516
Status Public on Feb 04, 2013
Title ventral_Dentate_Gyrus_WTH_rep1
Sample type genomic
 
Channel 1
Source name ventral Dentate Gyrus, 5HT1A wildtype offspring of a 5HT1A heterozygote mother, MspI
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: ventral Dentate Gyrus
offspring genotype: wild type
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 wildtype offspring of a 5HT1A heterozygote mother, HpaII
Organism Mus musculus
Characteristics strain: Swiss-Webster
cell type: ventral Dentate Gyrus
offspring genotype: wild type
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 2.33119061
MM5MSPIS00000030 3.7254258
MM5MSPIS00000131 -0.6537645
MM5MSPIS00000132 -0.635271
MM5MSPIS00000259 3.08113764
MM5MSPIS00000260 1.60910493
MM5MSPIS00000282 2.19066793
MM5MSPIS00000285 3.47397991
MM5MSPIS00000335 0.53430298
MM5MSPIS00000336 -0.1155707
MM5MSPIS00000388 2.82980193
MM5MSPIS00000438 -1.2920222
MM5MSPIS00000452 0.29928314
MM5MSPIS00000453 1.69107793
MM5MSPIS00000558 2.6712067
MM5MSPIS00000622 2.59420033
MM5MSPIS00000718 3.79660774
MM5MSPIS00000719 2.75043156
MM5MSPIS00000826 0.470742
MM5MSPIS00000939 1.32176433

Total number of rows: 25720

Table truncated, full table size 700 Kbytes.




Supplementary file Size Download File type/resource
GSM875516_35327102_532.pair.gz 6.0 Mb (ftp)(http) PAIR
GSM875516_35327102_635.pair.gz 5.9 Mb (ftp)(http) PAIR
Processed data included within Sample table

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