|
| Status |
Public on Jan 15, 2014 |
| Title |
HBsAg AFB Adjacent normal, biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
HBsAg_AFB_Adjacent_normal
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6J
genotype/variation: Hepatitis B surface antigen (HBsAg) transgenic
injected with: aflatoxin B1 (AFB1) on day7 (D7) after birth
age at tissue collection: 15 months
tissue: liver
tissue subtype: Adjacent normal
|
| Treatment protocol |
mice were treated with AFB 6 µg/g body weight (19 nmol/g) in trioctanoin containing 6% DMSO or corn oil on day 7 (D7) after birth
|
| Growth protocol |
fresh liver were harvested from mouse and snap frozen in liquid nitrogen
|
| Extracted molecule |
total RNA |
| Extraction protocol |
All samples were snap frozen in liquid N2. Total RNA was extracted from all samples using Trizol and further purified by RNeasy RNA extraction kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA (WT PLUS Reagent Kit User Manual, 2013, Affymetrix).
|
| |
|
| Hybridization protocol |
Samples were hybridized using Affymetrix hybridization kit materials as per manufactorere's instructions Samples were hybridized using Affymetrix hybridization kit materials as per manufactorere's instructions
|
| Scan protocol |
Affymetrix Gene ChIP Scanner 3000 7G
|
| Description |
AH 29M.CEL
|
| Data processing |
Data were processed using Partek software (v.6.5).
Quantile normalization using GC-RMS method, gene level expression were summarized from the quantile normalized data
|
| |
|
| Submission date |
Jan 14, 2014 |
| Last update date |
Jan 15, 2014 |
| Contact name |
Kanaga Sabapathy |
| Organization name |
National Cancer Centre Singapore
|
| Street address |
11 Hospital Drive
|
| City |
Singapore |
| State/province |
Singapore |
| ZIP/Postal code |
169610 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE54054 |
Expression data from mouse liver |
|
