|
| Status |
Public on Feb 04, 2013 |
| Title |
ventral_Dentate_Gyrus_KOH_rep1 |
| 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 |
|
