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Sample GSM239969 Query DataSets for GSM239969
Status Public on Jan 01, 2008
Title St6gal1-/- tumor #3151
Sample type RNA
 
Source name PyV-mT St6gal1-/- tumor
Organism Mus musculus
Characteristics Strain: C57BL/6
Gender: female
Age: 110 days
Tissue: mammary tumor
Days after tumor onset: 14 days
Extracted molecule total RNA
Extraction protocol The tumor tissue (100 mg) was homogenized in Ultraspec (Biotecx Labs, Houston, TX), and total RNA was extracted according to the manufacturer's protocol.
Label Biotin (Affymetrix IVT)
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized on Murine Genome 430 2.0 Array GeneChip. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Six PyV-mT St6gal1 null and wild-type tumor pairs were used, in four independent pools of three tumors each.
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Oct 27, 2007
Last update date Aug 28, 2018
Contact name Maria Hedlund
E-mail(s) mahedlund@ucsd.edu
Organization name UCSD
Street address 9500 Gilman Dr CMM-E #1087
City La Jolla
State/province CA
ZIP/Postal code 92093-0687
Country USA
 
Platform ID GPL1261
Series (1)
GSE9447 Alpha2-6-linked Sialic Acids on N-Glycans Modulate Carcinoma Differentiation In Vivo
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE MAS 5.0 signal
ABS_CALL MAS 5.0 detection call
DETECTION P-VALUE MAS 5.0 detection p-value

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 4163.81 P 0.000258358
AFFX-BioB-M_at 6209.31 P 4.42873e-05
AFFX-BioB-3_at 3494.96 P 4.42873e-05
AFFX-BioC-5_at 13376.8 P 5.16732e-05
AFFX-BioC-3_at 18334.5 P 4.42873e-05
AFFX-BioDn-5_at 28595 P 4.42873e-05
AFFX-BioDn-3_at 53224.9 P 4.42873e-05
AFFX-CreX-5_at 145207 P 5.16732e-05
AFFX-CreX-3_at 170652 P 4.42873e-05
AFFX-DapX-5_at 15.2265 A 0.921998
AFFX-DapX-M_at 244.135 A 0.0894781
AFFX-DapX-3_at 18.4304 A 0.945787
AFFX-LysX-5_at 47.9261 A 0.772383
AFFX-LysX-M_at 30.2911 A 0.814869
AFFX-LysX-3_at 73.2935 A 0.300591
AFFX-PheX-5_at 14.0643 A 0.852061
AFFX-PheX-M_at 28.0089 A 0.724871
AFFX-PheX-3_at 373.934 A 0.139482
AFFX-ThrX-5_at 171.686 A 0.455413
AFFX-ThrX-M_at 115.141 A 0.48511

Total number of rows: 45101

Table truncated, full table size 1384 Kbytes.




Supplementary file Size Download File type/resource
GSM239969.CEL.gz 3.6 Mb (ftp)(http) CEL
GSM239969.CHP.gz 239.2 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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