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Sample GSM710922 Query DataSets for GSM710922
Status Public on Nov 21, 2011
Title FOLFOX non-responder test, #1308
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 322.01271
AFFX-BioB-M_at 388.98098
AFFX-BioB-3_at 292.58353
AFFX-BioC-5_at 538.75547
AFFX-BioC-3_at 667.37976
AFFX-BioDn-5_at 1551.45850
AFFX-BioDn-3_at 2500.58253
AFFX-CreX-5_at 6953.51741
AFFX-CreX-3_at 7274.95095
AFFX-DapX-5_at 12.00271
AFFX-DapX-M_at 8.49624
AFFX-DapX-3_at 5.83461
AFFX-LysX-5_at 8.13965
AFFX-LysX-M_at 26.54021
AFFX-LysX-3_at 16.15459
AFFX-PheX-5_at 10.83809
AFFX-PheX-M_at 22.30111
AFFX-PheX-3_at 11.51170
AFFX-ThrX-5_at 9.39531
AFFX-ThrX-M_at 7.88815

Total number of rows: 54675

Table truncated, full table size 1067 Kbytes.




Supplementary file Size Download File type/resource
GSM710922.CEL.gz 8.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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