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Sample GSM1249712 Query DataSets for GSM1249712
Status Public on Oct 24, 2013
Title Untreated control, LNCaP, biological rep 2
Sample type RNA
 
Source name LNCaP cells, 0µM zebularine, 216hours
Organism Homo sapiens
Characteristics cell line: LNCaP
cell type: prostate cancer cell line
treatment: none
time: 216 hrs
Treatment protocol Cell seeding (day0), treatment start (24 hours later, day1), medium change and splitting of cells on day3 and day6.
Growth protocol Monolayer cell culture (RPMI-1640 + 10%FCS) in the presence (100µM) or absence of Zebularine (SIGMA, cat. no. Z4775).
Extracted molecule total RNA
Extraction protocol miRNeasy Mini Kit Qiagen (Cat. No.217004) total RNA extraction was done according to manufacturer's instructions, QC by AGILENT Bioanalyzer (only RIN >8.0 used).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 300 ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, cRNAs were hybridized for 16 hr at 45C on GeneChip Human Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned on the GeneChip Scanner 3000 G7.
Description HK_29_LNCaP_mock_2
ATCC No.: HTB-1740
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
 
Submission date Oct 23, 2013
Last update date Jan 24, 2014
Contact name Hans G Krause
E-mail(s) hans.krause@charite.de
Organization name Charité - Universitätsmedizin Berlin
Department Klinik für Urologie
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
 
Platform ID GPL10739
Series (1)
GSE51629 Treatment of prostate cancer cell lines DU-145 and LNCaP with zebularine

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity (log2 transformed)

Data table
ID_REF VALUE
7892501 7.52843
7892502 6.2644
7892503 4.38366
7892504 9.51943
7892505 4.80273
7892506 5.77504
7892507 6.41252
7892508 8.01644
7892509 11.4352
7892510 4.17512
7892511 3.38267
7892512 7.45904
7892513 3.3103
7892514 11.5346
7892515 9.84672
7892516 6.03228
7892517 7.13423
7892518 3.83426
7892519 5.76039
7892520 9.31634

Total number of rows: 257101

Table truncated, full table size 3988 Kbytes.




Supplementary file Size Download File type/resource
GSM1249712_HK_29_LNCaP_mock_2.CEL.gz 4.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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