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Sample GSM710906 Query DataSets for GSM710906
Status Public on Nov 21, 2011
Title FOLFOX non-responder test, #1071
Sample type RNA
 
Source name tumor sample of patients with unresectable CRC before mFOLFOX6 therapy
Organism Homo sapiens
Characteristics lesion: Primary
location: Sigmoid
mfolfox6: non-responder
gender: M
type: test
Treatment protocol Surgical specimens were immediately cut into small pieces after resection, snap frozen in liquid nitrogen, and stored at –80°C
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label Biotin
Label protocol Experimental procedures for GeneChip(TM) were performed in accordance with the GeneChip Expression Analysis Technical Manual (Affymetrix, Santa Clara, CA), using 3 µg of total RNA.
 
Hybridization protocol Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.
Data processing The data were analyzed with Affymetrix Power Tools (APT version:1.12.0). The apt-probeset-summarize command were used with -a plier-mm-sketch option.
 
Submission date Apr 19, 2011
Last update date Nov 21, 2011
Contact name Shingo Tsuji
E-mail(s) tsuji@genome.rcast.u-tokyo.ac.jp
Organization name The University of Tokyo
Department Research Center for Advanced Science and Technology
Lab Genome Science div.
Street address 4-6-1 Komaba
City Meguro-ku
State/province Tokyo
ZIP/Postal code 153-8904
Country Japan
 
Platform ID GPL570
Series (1)
GSE28702 CRC samples for FOLFOX therapy prediction

Data table header descriptions
ID_REF probe ID
VALUE APT-calculated Signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 3.80114
AFFX-BioB-M_at 0.00193
AFFX-BioB-3_at 2.18380
AFFX-BioC-5_at 547.94087
AFFX-BioC-3_at 741.99459
AFFX-BioDn-5_at 1195.54831
AFFX-BioDn-3_at 2108.07668
AFFX-CreX-5_at 6544.04179
AFFX-CreX-3_at 7309.78972
AFFX-DapX-5_at 9.30064
AFFX-DapX-M_at 11.46701
AFFX-DapX-3_at 0.00981
AFFX-LysX-5_at 4.57422
AFFX-LysX-M_at 15.58021
AFFX-LysX-3_at 7.84073
AFFX-PheX-5_at 13.69211
AFFX-PheX-M_at 19.35810
AFFX-PheX-3_at 14.97236
AFFX-ThrX-5_at 9.60444
AFFX-ThrX-M_at 13.54144

Total number of rows: 54675

Table truncated, full table size 1069 Kbytes.




Supplementary file Size Download File type/resource
GSM710906.CEL.gz 8.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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