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Sample GSM86465 Query DataSets for GSM86465
Status Public on Dec 09, 2005
Title WT3-Expt6, chip MG_U74Bv2
Sample type RNA
 
Source name , Mammary gland
Organism Mus musculus
Characteristics Strain: FVB
Treatment protocol Assays to confirm viability: PCR and immunocytochemistry for sca-1
Extracted molecule total RNA
Extraction protocol RNA prep method: CsCl and Qiagen purification
Cell purification method: FACS for Sca-1 +ve
Method for estimating purity: PCR for sca-1 transcripts
Label Biotin
 
Description This sample was analyzed as part of the Stem Cell Genomics Project (http://www.scgp.ca:8080/StemBase/). The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. John Hassell (hassell@mcmaster.ca; Life Science Building, Rm 422; 1280 Main St. W.) for analysis.
Stembase Experiment ID: E6
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=6
SCGP Sample ID: S65
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=6#SAMPLE_49
Short description: RNA pool from mammary glands tumours of wild-type PEA3 mice induced by the Her2/Neu transgene.
Estimated purity: 80%
RNA concentration: 2.0 ug/ul
Sample volume: 10.0 ul
Data processing Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
 
Submission date Dec 07, 2005
Last update date Jan 19, 2006
Organization Ottawa Hospital Research Institute
Phone (613) 737-8899 -73255
Department Cellular and Molecular Medicine
Lab Ottawa Bioinformatics Core Facility
Street address 501 Smyth Rd.
City Ottawa
State/province ON
ZIP/Postal code K1H 8L6
Country Canada
 
Platform ID GPL82
Series (1)
GSE3765 Gene Expression Study of Mammary Glands Tumours of PEA3-null and Wild-type PEA3 Mice

Data table header descriptions
ID_REF
VALUE 'signal' a measure of the abundance of a transcript. Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06.
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-MurIL2_at 165.791 A 0.963431
AFFX-MurIL10_at 343.91 A 0.783476
AFFX-MurIL4_at 76.4704 A 0.957038
AFFX-MurFAS_at 930.573 A 0.368438
AFFX-BioB-5_at 8873.58 P 0.00227496
AFFX-BioB-M_at 18474.9 P 9.4506e-05
AFFX-BioB-3_at 9470.27 P 0.000126798
AFFX-BioC-5_at 24257 P 0.00010954
AFFX-BioC-3_at 26555.3 P 6.02111e-05
AFFX-BioDn-5_at 24966.6 P 6.02111e-05
AFFX-BioDn-3_at 119673 P 4.42873e-05
AFFX-CreX-5_at 247525 P 4.42873e-05
AFFX-CreX-3_at 339288 P 6.59169e-05
AFFX-BioB-5_st 2384.26 A 0.216524
AFFX-BioB-M_st 731.962 A 0.712257
AFFX-BioB-3_st 459.789 A 0.672921
AFFX-BioC-5_st 1246.18 A 0.631562
AFFX-BioC-3_st 89.4504 A 0.631562
AFFX-BioDn-5_st 3242.77 A 0.083592
AFFX-BioDn-3_st 3722.67 P 0.0396608

Total number of rows: 12477

Table truncated, full table size 358 Kbytes.




Supplementary file Size Download File type/resource
GSM86465.CEL.gz 2.7 Mb (ftp)(http) CEL
GSM86465.EXP.gz 526 b (ftp)(http) EXP

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