|
| Status |
Public on Jun 30, 2013 |
| Title |
209_MIRA |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
MIRA enriched DNA_from untreated
|
| Organism |
Mus musculus |
| Characteristics |
strain: Big Blue® mouse
tissue: Seminal vesicles (SV)
enrichment procedure: MIRA
antibodies/kit information: In Lab purified His-MBD3L1 & GST-MBD2b
treatment: DMSO
|
| Treatment protocol |
mice injected with chronic doses of DMSO
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated using standard phenol/chloroform extraction and ethanol precipitation method.
|
| Label |
Cy5
|
| Label protocol |
According to standard NimbleGen Protocol
|
| |
|
| Channel 2 |
| Source name |
Genomic Input DNA_from untreated
|
| Organism |
Mus musculus |
| Characteristics |
strain: Big Blue® mouse
tissue: Seminal vesicles (SV) from mice injected with chronic doses of DMSO
treatment: DMSO
|
| Treatment protocol |
mice injected with chronic doses of DMSO
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated using standard phenol/chloroform extraction and ethanol precipitation method.
|
| Label |
Cy3
|
| Label protocol |
According to standard NimbleGen Protocol
|
| |
|
| |
| Hybridization protocol |
According to NimbleGen Kit
|
| Scan protocol |
Follow NimbleScan's default using Agilent Scanner
|
| Description |
DNA methylation profile in 209
|
| Data processing |
Loess normalization was applied excluding top 5% probes with the largest original Cy5/Cy3 log2 ratio
|
| |
|
| Submission date |
Oct 09, 2012 |
| Last update date |
Jun 30, 2013 |
| Contact name |
Xiwei Wu |
| E-mail(s) |
xwu@coh.org
|
| Organization name |
City of Hope National Medical Center
|
| Department |
Computational and Quantitative Medicine
|
| Street address |
1500 E. Duarte Rd.
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL15761 |
| Series (1) |
| GSE41422 |
Alterations of DNA methylome during chemical carcinogenesis |
|
