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Sample GSM624914 Query DataSets for GSM624914
Status Public on Dec 01, 2011
Title prostate_AP_high_fat_rep3
Sample type RNA
 
Source name Anterior Prostate of mouse fed with a high fat and high cholesterol diet
Organism Mus musculus
Characteristics strain: SCID
gender: male
tissue: prostate
prostate region: AP
diet: high fat and high 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 Anterior Prostate of mouse fed with a high fat and high 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

Data table header descriptions
ID_REF
VALUE quantile normalized signal intensity

Data table
ID_REF VALUE
1415670_at 8.104720129
1415671_at 8.770457448
1415672_at 6.87199684
1415673_at 5.949531718
1415674_a_at 7.424485561
1415675_at 7.777299981
1415676_a_at 9.106662553
1415677_at 6.186939515
1415678_at 6.772882629
1415679_at 9.397854949
1415680_at 6.702095988
1415681_at 8.636311492
1415682_at 4.937377497
1415683_at 8.30899318
1415684_at 5.315808882
1415685_at 5.802191759
1415686_at 7.493789785
1415687_a_at 10.5174536
1415688_at 7.949079952
1415689_s_at 4.490434548

Total number of rows: 22690

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM624914.CEL.gz 1.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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