|
| Status |
Public on Dec 01, 2011 |
| Title |
prostate_VP_low_fat_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Ventral Prostate of mouse fed with a low fat and no cholesterol diet
|
| Organism |
Mus musculus |
| Characteristics |
strain: SCID
gender: male
tissue: prostate
prostate region: VP
diet: low fat and no cholesterol
|
| Treatment protocol |
After 6 weeks, the prostates of the mice were separately extracted as Ventral Prostate(VP), Dorsal Lateral Prostate (DLP), and Anterior Prostate (AP).
|
| Growth protocol |
In total, 18 SCID male mice were used in the study, one group of mice was fed a high fat and high cholesterol (HFHC) diet, and another group of 9 mice were fed a low fat and no cholesterol diet (LFNC).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNAs were extracted using a Qiagen RNEasy tissue extraction kit (Qiagen Inc., Valencia, California).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Microarray hybridization was performed by following general Affymetrix protocol at Dana-Farber Cancer Institute microarray core facility.
|
| Scan protocol |
Scanning of microarrays were performed by following general Affymetrix protocol at Dana-Farber Cancer Institute microarray core facility.
|
| Description |
Gene expression data from Ventral Prostate of mouse fed with a low fat and no cholesterol diet
|
| Data processing |
Data normalization and summarization of expression values for each probe were calculated using gcRMA method. Quantile normalization of the data was performed with gcrma R/Bioconductor package v2.11.
|
| |
|
| Submission date |
Nov 17, 2010 |
| Last update date |
Dec 01, 2011 |
| Contact name |
Taek-Kyun Kim |
| URL |
http://sbm.postech.ac.kr
|
| Organization name |
POSTECH
|
| Department |
Interdisciplinary Bioscience and Bioengineering
|
| Lab |
Systems Biology and Medicine Laboratory
|
| Street address |
San 31, Hyoja-dong, Nam-gu
|
| City |
Pohang |
| State/province |
Gyeongbuk |
| ZIP/Postal code |
790-784 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL8321 |
| Series (2) |
| GSE25461 |
Gene expression of three prostate lobes, ventral prostate (VP), dorsal lateral prostate (DLP), and anterior prostate (AP), by cholesterol diet |
| GSE25500 |
The Response of the Prostate to Changes in Circulating Cholesterol: Activating Transcription Factor 3 (ATF3) as a Cholesterol Sensor |
|
