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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 09, 2005 |
| Title |
PP6 #3, chip MOE430B |
| Sample type |
RNA |
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| Source name |
primary culture, Hind limb muscles
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| Organism |
Mus musculus |
| Characteristics |
Strain: C57BL/10J
Gender: Female
Karyotype: BL.C5710J
Defining markers: none
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| Treatment protocol |
Assays to confirm viability: erythrosin B exclusion
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| Growth protocol |
Growth medium: F10 Ham
Media supplements: 20% FBS, pen/strep
Culture conditions: 37C, 5% CO2
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA prep method: RNeasy
Amplification method: None
Cell purification method: preplatings
Contaminating cell type: muscles cells
Method for estimating purity: none
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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. Alain Garnier (Alain.Garnier@gch.ulaval.ca; Pavillon Adrien-Pouliot) for analysis.
Stembase Experiment ID: E144
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=144
SCGP Sample ID: S197
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=144#SAMPLE_308
Short description: Putative muscle derived stem cells purified with preplatings from muscle hind limb muscles.
Analysis requested: MOE430 Affymetrix chip
RNA concentration: 15ng/ul
Num cells for RNA prep: 6.7x10E6
Sample volume: B: 5ul M: 20ul
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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 |
GPL340 |
| Series (1) |
| GSE3773 |
Putative muscle derived stem cells from mouse. |
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| Data table header descriptions |
| ID_REF |
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| 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-BioB-5_at |
17245.6 |
P |
0.000509415 |
| AFFX-BioB-M_at |
32918.6 |
P |
4.42873e-05 |
| AFFX-BioB-3_at |
20833.4 |
P |
7.00668e-05 |
| AFFX-BioC-5_at |
48799 |
P |
7.00668e-05 |
| AFFX-BioC-3_at |
48971 |
P |
6.02111e-05 |
| AFFX-BioDn-5_at |
53454.2 |
P |
0.000340305 |
| AFFX-BioDn-3_at |
252878 |
P |
5.16732e-05 |
| AFFX-CreX-5_at |
485937 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
653038 |
P |
4.42873e-05 |
| AFFX-DapX-5_at |
586572 |
P |
4.42873e-05 |
| AFFX-DapX-M_at |
775724 |
P |
4.42873e-05 |
| AFFX-DapX-3_at |
828930 |
P |
4.42873e-05 |
| AFFX-LysX-5_at |
592578 |
P |
4.42873e-05 |
| AFFX-LysX-M_at |
811046 |
P |
4.42873e-05 |
| AFFX-LysX-3_at |
839272 |
P |
4.42873e-05 |
| AFFX-PheX-5_at |
248145 |
P |
4.42873e-05 |
| AFFX-PheX-M_at |
575660 |
P |
4.42873e-05 |
| AFFX-PheX-3_at |
894567 |
P |
4.42873e-05 |
| AFFX-ThrX-5_at |
47839.5 |
P |
7.00668e-05 |
| AFFX-ThrX-M_at |
220562 |
P |
4.42873e-05 |
Total number of rows: 22575
Table truncated, full table size 664 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM86588.CEL.gz |
3.1 Mb |
(ftp)(http) |
CEL |
| GSM86588.EXP.gz |
507 b |
(ftp)(http) |
EXP |
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