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Sample GSM625869 Query DataSets for GSM625869
Status Public on Dec 01, 2011
Title CLM_0h
Sample type RNA
Source name LNCaP human prostate tumor cells
Organism Homo sapiens
Characteristics cell line: LNCaP
treatment group: serum-starved for 0h followed by CLM medium
Treatment protocol LNCap human prostate tumor cells were serum-starved for 0h, 3h and 16h followed by CLM medium.
Growth protocol LNCaP human prostate tumor cells were purchased from American Type Culture Collection (ATCC, Manassas, VA) and kept cultured in RPMI1640 media (Invitrogen, Carlsbad, CA) supplemented with 10% FBS and 1% Penicillin/Streptomycin at 37°C under 5% CO2.
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 LNCaP human prostate tumor cells serum-startved for 0h followed by CLM medium
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 18, 2010
Last update date Dec 01, 2011
Contact name Taek-Kyun Kim
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 GPL571
Series (2)
GSE25472 Gene expression of LNCaP human prostate cells 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
VALUE quantile normalized signal intensity

Data table
1007_s_at 12.01603267
1053_at 10.69263552
117_at 2.014942594
121_at 2.210161153
1255_g_at 2.014942594
1294_at 2.014942594
1316_at 5.62315025
1320_at 2.040441039
1405_i_at 2.014942594
1431_at 2.182883736
1438_at 2.014942594
1487_at 10.79840397
1494_f_at 2.014942594
1598_g_at 2.646118317
160020_at 2.014942594
1729_at 7.409728567
177_at 2.472527008
1773_at 2.014942594
179_at 2.014942594
1861_at 7.300123503

Total number of rows: 22277

Table truncated, full table size 497 Kbytes.

Supplementary file Size Download File type/resource
GSM625869.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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