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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 09, 2005 |
| Title |
Pool 1, chip MG_U74Bv2 |
| Sample type |
RNA |
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| Source name |
Tissue, Mammary gland
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| Organism |
Mus musculus |
| Characteristics |
Strain: FVB
Gender: Female
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| Treatment protocol |
Assays to confirm viability: PCR and immunocytochemistry for sca-1
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA prep method: CsCl and Qiagen purification
Cell purification method: FACS for sca-1+
Method for estimating purity: PCR for sca-1 transcripts
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| Label |
Biotin
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| 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: S119
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=6#SAMPLE_89
Short description: RNA isolated from normal FVB mouse mammary glands.
Estimated purity: 80%
RNA concentration: 2.1 ug/ul
Sample volume: 10.0 ul
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| Data processing |
Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
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| Submission date |
Dec 07, 2005 |
| Last update date |
Jan 19, 2006 |
| Organization |
Ottawa Hospital Research Institute |
| Phone |
(613) 737-8899 -73255
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| Department |
Cellular and Molecular Medicine
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| Lab |
Ottawa Bioinformatics Core Facility
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| Street address |
501 Smyth Rd.
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| City |
Ottawa |
| State/province |
ON |
| ZIP/Postal code |
K1H 8L6 |
| Country |
Canada |
| |
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| Platform ID |
GPL82 |
| Series (1) |
| GSE3765 |
Gene Expression Study of Mammary Glands Tumours of PEA3-null and Wild-type PEA3 Mice |
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| 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 |
235.231 |
A |
0.941556 |
| AFFX-MurIL10_at |
701.915 |
A |
0.425962 |
| AFFX-MurIL4_at |
422.209 |
A |
0.455413 |
| AFFX-MurFAS_at |
1219.85 |
P |
0.0166701 |
| AFFX-BioB-5_at |
8305.21 |
P |
0.000581214 |
| AFFX-BioB-M_at |
17178.8 |
P |
0.00010954 |
| AFFX-BioB-3_at |
10492.9 |
P |
8.14279e-05 |
| AFFX-BioC-5_at |
26664.3 |
P |
7.00668e-05 |
| AFFX-BioC-3_at |
25105.1 |
P |
4.42873e-05 |
| AFFX-BioDn-5_at |
36101.7 |
P |
5.16732e-05 |
| AFFX-BioDn-3_at |
167185 |
P |
5.16732e-05 |
| AFFX-CreX-5_at |
370234 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
443400 |
P |
4.42873e-05 |
| AFFX-BioB-5_st |
1321.65 |
A |
0.175328 |
| AFFX-BioB-M_st |
2019.45 |
A |
0.250796 |
| AFFX-BioB-3_st |
2411.38 |
A |
0.354453 |
| AFFX-BioC-5_st |
378.285 |
A |
0.724854 |
| AFFX-BioC-3_st |
597.95 |
A |
0.455413 |
| AFFX-BioDn-5_st |
3283.33 |
A |
0.0676785 |
| AFFX-BioDn-3_st |
4397.98 |
P |
0.0284573 |
Total number of rows: 12477
Table truncated, full table size 360 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM86467.CEL.gz |
2.6 Mb |
(ftp)(http) |
CEL |
| GSM86467.EXP.gz |
518 b |
(ftp)(http) |
EXP |
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