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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 09, 2005 |
| Title |
Mouse primary retinal sphere, chip MOE430B |
| Sample type |
RNA |
| |
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| Source name |
Retinal sphere cells, Ciliary margin of eye
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| Organism |
Mus musculus |
| Characteristics |
Strain: CD1
Gender: Male
|
| Treatment protocol |
Assays to confirm viability: Sphere assy
|
| Growth protocol |
Growth medium: SFM
Media supplements: FGF, EGF
Culture conditions: 37 C,5% CO2
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA prep method: Trizol followed by RNeasy
Cell purification method: FACS
Method for estimating purity: FACS
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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. Rod McInnes ([email protected]; 555 University Ave, Elm Wing 11-101) for analysis.
Stembase Experiment ID: E189
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=189
SCGP Sample ID: S240
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=189#SAMPLE_198
Short description: RNA isolated from primary retinal sphere cells.
Estimated purity: > 90%
RNA concentration: > 0.7 ug/ul
Num cells for RNA prep: ~600,000
Sample volume: 5.0 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 08, 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 |
| |
|
| Platform ID |
GPL340 |
| Series (1) |
| GSE3791 |
Gene Expression Comparison of First Passage vs. Primary Human and Mouse Retinal Sphere Cells |
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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-BioB-5_at |
15791.4 |
P |
0.000856509 |
| AFFX-BioB-M_at |
26452.2 |
P |
4.42873e-05 |
| AFFX-BioB-3_at |
16977.3 |
P |
4.42873e-05 |
| AFFX-BioC-5_at |
43009.6 |
P |
7.00668e-05 |
| AFFX-BioC-3_at |
29777.7 |
P |
4.42873e-05 |
| AFFX-BioDn-5_at |
37802.7 |
P |
4.42873e-05 |
| AFFX-BioDn-3_at |
191911 |
P |
5.16732e-05 |
| AFFX-CreX-5_at |
467545 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
647946 |
P |
4.42873e-05 |
| AFFX-DapX-5_at |
63813.8 |
P |
4.42873e-05 |
| AFFX-DapX-M_at |
304434 |
P |
4.42873e-05 |
| AFFX-DapX-3_at |
396703 |
P |
4.42873e-05 |
| AFFX-LysX-5_at |
31141.9 |
P |
4.42873e-05 |
| AFFX-LysX-M_at |
168797 |
P |
4.42873e-05 |
| AFFX-LysX-3_at |
415340 |
P |
4.42873e-05 |
| AFFX-PheX-5_at |
10367.4 |
P |
5.16732e-05 |
| AFFX-PheX-M_at |
19175.7 |
P |
4.42873e-05 |
| AFFX-PheX-3_at |
94029.6 |
P |
4.42873e-05 |
| AFFX-ThrX-5_at |
1685.77 |
P |
0.0125468 |
| AFFX-ThrX-M_at |
5430.57 |
P |
0.000753643 |
Total number of rows: 22575
Table truncated, full table size 667 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM87202.CEL.gz |
3.2 Mb |
(ftp)(http) |
CEL |
| GSM87202.EXP.gz |
514 b |
(ftp)(http) |
EXP |
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