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Sample GSM148527 Query DataSets for GSM148527
Status Public on Dec 09, 2006
Title MCF7_dose_EGF_0.5nM_15min
Sample type RNA
 
Source name breast epithelial cell, adherent, EGF, 0.5nM, 15min
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 (http://www.affymetrix.com/support/technical/manual/expression_manual.affx) (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 (http://www.affymetrix.com/support/technical/manual/expression_manual.affx) (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
E-mail(s) marikoh@rcai.riken.jp
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
ID_REF
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
ID_REF VALUE ABS_CALL
AFFX-BioB-3_at 97.3 P
AFFX-BioB-5_at 139.9 P
AFFX-BioB-M_at 190.2 P
AFFX-BioC-3_at 490.4 P
AFFX-BioC-5_at 369.5 P
AFFX-BioDn-3_at 2008.4 P
AFFX-BioDn-5_at 1043.5 P
AFFX-CreX-3_at 6039.1 P
AFFX-CreX-5_at 4224.6 P
AFFX-DapX-3_at 460.8 P
AFFX-DapX-5_at 196.2 P
AFFX-DapX-M_at 532.8 P
AFFX-HSAC07/X00351_3_at 12765.2 P
AFFX-HSAC07/X00351_5_at 10378.5 P
AFFX-HSAC07/X00351_M_at 11984.4 P
AFFX-HUMGAPDH/M33197_3_at 13943.4 P
AFFX-HUMGAPDH/M33197_5_at 14225.0 P
AFFX-HUMGAPDH/M33197_M_at 12713.3 P
AFFX-HUMISGF3A/M97935_3_at 1537.9 P
AFFX-HUMISGF3A/M97935_5_at 200.9 P

Total number of rows: 22277

Table truncated, full table size 402 Kbytes.




Supplementary file Size Download File type/resource
GSM148527.CEL.gz 2.1 Mb (ftp)(http) CEL
GSM148527.EXP.gz 382 b (ftp)(http) EXP

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