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Sample GSM148531 Query DataSets for GSM148531
Status Public on Dec 09, 2006
Title MCF7_dose_EGF_0.5nM_90min
Sample type RNA
Source name breast epithelial cell, adherent, EGF, 0.5nM, 90min
Organism Homo sapiens
Characteristics Cell line: MCF-7 (Obtained from ATCC (American Type Culture Collection)), Organ: mammary gland; breast, Cell type: epithelial, Disease: adenocarcinoma, Derived from metastatic site: pleural effusion, Age: 69 years adult, Gender: female, Ethnicity: Caucasian
Treatment protocol Before treatments, medium were changed with serum-free medium again and incubated at 37C for 2 hours. Followed by incubation, added each ligand and incubated for each time.
Growth protocol Prior to the growth factor (GF) treatment, cells were serum starved for 16-18 hours with serum-free DMEM medium and incubated at 37C/5% CO2. The medium was again changed 2 hr prior to the GF treatment.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol reagent (Invitrogen) and then purified using QIAGEN Rneasy kit.
Label biotin
Label protocol Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual) was used. Complete protocal can be found manufacturer's web site ( (section2, chapter1-p13-18, & 2.1.p32-33,p36-40)
Hybridization protocol Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual) was used. Complete protocal can be found manufacturer's web site ( (section2, 2.2.p3-8 & 2.3.p3-14)
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 with default parameter.
Description Early gene expression (up to 90min) induced by growth hormone stimulation.
Data processing The data were analyzed with GeneChip Operating System (GCOS) (ver.1.2) using Affymetrix default analysis settings and global scaling as normalization method. The Single-Array Expression Analysis function was used and the trimmed mean target intensity of each array was arbitrarily set to 500.
Submission date Dec 06, 2006
Last update date Dec 08, 2006
Contact name Mariko Okada
Organization name RIKEN RCAI
Lab Laboratory for Cellular Systems Modeling
Street address W518, 1-7-22, Suehiro-cho, Tsurumi-ku
City Yokohama
ZIP/Postal code 230-0045
Country Japan
Platform ID GPL571
Series (1)
GSE6462 MCF7 dose response

Data table header descriptions
VALUE GCOS calculated signal intensities
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A) or marginal (M)

Data table
AFFX-BioB-3_at 116.8 P
AFFX-BioB-5_at 140.8 P
AFFX-BioB-M_at 197.9 P
AFFX-BioC-3_at 567.8 P
AFFX-BioC-5_at 367.2 P
AFFX-BioDn-3_at 1982.0 P
AFFX-BioDn-5_at 991.6 P
AFFX-CreX-3_at 5982.5 P
AFFX-CreX-5_at 4455.2 P
AFFX-DapX-3_at 470.0 P
AFFX-DapX-5_at 224.2 P
AFFX-DapX-M_at 510.6 P
AFFX-HSAC07/X00351_3_at 12480.4 P
AFFX-HSAC07/X00351_5_at 10242.8 P
AFFX-HSAC07/X00351_M_at 11500.7 P
AFFX-HUMGAPDH/M33197_3_at 13224.2 P
AFFX-HUMGAPDH/M33197_5_at 13452.9 P
AFFX-HUMGAPDH/M33197_M_at 12302.2 P
AFFX-HUMISGF3A/M97935_3_at 1574.7 P
AFFX-HUMISGF3A/M97935_5_at 115.9 P

Total number of rows: 22277

Table truncated, full table size 401 Kbytes.

Supplementary file Size Download File type/resource
GSM148531.CEL.gz 2.1 Mb (ftp)(http) CEL
GSM148531.EXP.gz 388 b (ftp)(http) EXP

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