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Sample GSM559515 Query DataSets for GSM559515
Status Public on May 14, 2012
Title HCC-1428/LTED, EtOH, rep 3
Sample type RNA
 
Source name HCC-1428/LTED cells, EtOH
Organism Homo sapiens
Characteristics cell line: HCC-1428/LTED
cell type: breast cancer
treatment: ethanol
Treatment protocol Cells were seeded in 100-mm dishes in triplicate. The following day, cells were washed with PBS, and treated with IMEM + 10% DCC-FBS (no phenol red) containing 0.1% EtOH or 1 uM fulvestrant. Forty-eight hrs later, RNA was harvested.
Growth protocol MCF-7/LTED and HCC-1428/LTED cells were maintained in IMEM + 10% DCC-FBS (no phenol red).
Extracted molecule total RNA
Extraction protocol Trizol extraction followed by Qiagen RNeasy column clean-up with on-column DNase digestion.
Label biotin
Label protocol GeneChip One-Cycle Target Labeling and Control reagents kit (Affymetrix).
 
Hybridization protocol 15 ug biotinylated cRNA was fragmented and hybridizied to an Affymetrix GeneChip Human Genome U133 Plus 2.0 array.
Scan protocol Hybridized cRNA was detected using streptavidin coupled to phycoerythrin. GeneChips were scanned using the GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (Affymetrix).
Description Gene expression data from HCC-1428/LTED cells treated with 10% DCC-FBS + 0.1% EtOH x 48 hrs.
Data processing Default values were used to grid images (.DAT) and generate .CEL and .CHP files. Data were RMA-normalized using Expression Console (Affymetrix).
 
Submission date Jun 23, 2010
Last update date May 14, 2012
Contact name Todd W Miller
E-mail(s) todd.miller@vanderbilt.edu
Organization name Vanderbilt Univ
Department Medicine
Street address 2220 Pierce Ave, 777 PRB
City Nashville
State/province TN
ZIP/Postal code 37174
Country USA
 
Platform ID GPL570
Series (2)
GSE22533 Breast cancer cells resistant to hormone deprivation maintain an estrogen receptor alpha-dependent, E2F-directed transcriptional program
GSE37955 ERa-dependent E2F transcription can mediate resistance to estrogen deprivation in human breast cancer

Data table header descriptions
ID_REF
VALUE RMA value

Data table
ID_REF VALUE
AFFX-BioB-5_at 7.812712
AFFX-BioB-M_at 8.233246
AFFX-BioB-3_at 7.836464
AFFX-BioC-5_at 9.142145
AFFX-BioC-3_at 9.56339
AFFX-BioDn-5_at 10.46659
AFFX-BioDn-3_at 11.87255
AFFX-CreX-5_at 13.0903
AFFX-CreX-3_at 13.56147
AFFX-DapX-5_at 6.962054
AFFX-DapX-M_at 8.095675
AFFX-DapX-3_at 8.062339
AFFX-LysX-5_at 3.59327
AFFX-LysX-M_at 4.198274
AFFX-LysX-3_at 5.555053
AFFX-PheX-5_at 4.916925
AFFX-PheX-M_at 5.651363
AFFX-PheX-3_at 5.856521
AFFX-ThrX-5_at 5.679584
AFFX-ThrX-M_at 5.974627

Total number of rows: 54675

Table truncated, full table size 1052 Kbytes.




Supplementary file Size Download File type/resource
GSM559515.CEL.gz 4.7 Mb (ftp)(http) CEL
GSM559515.chp.gz 376.4 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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