 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 09, 2005 |
| Title |
GFP_Exe TS (replicate 3), chip MG_U74Cv2 |
| Sample type |
RNA |
| |
|
| Source name |
TS cell line, Extraembryonic ectoderm
|
| Organism |
Mus musculus |
| Characteristics |
Strain: ICR
Defining markers: Eomesodermin, Cdx2, 8MP4
|
| Treatment protocol |
Assays to confirm viability: None, grown in normal stem cell conditions
|
| Growth protocol |
Growth medium: RPMI 1640, tissue culture plastic
Media supplements: +20% Cansera FBS, FGf4 (25 ng/ml) therapin, NaPyruvate, nonessential aa, L-glutamine, B-mercaptoethanol, !Sample_extract_protocol = RNA prep method: RNeasy
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cell purification method: None
Contaminating cell type: differentiated TS cells may be present
Method for estimating purity: Visual inspection
|
| 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. Janet Rossant (rossant@mshri.on.ca; 884-600 University Avenue) for analysis.
Stembase Experiment ID: E11
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=11
SCGP Sample ID: S14
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=11#SAMPLE_12
Short description: GFP-Exe Trophoblast stem cells (WT+GFP transgene)
Estimated purity: 90-95%
RNA concentration: 3.74 ug/ul
Sample volume: 15.0 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 |
GPL83 |
| Series (1) |
|
| 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 |
452.807 |
A |
0.559354 |
| AFFX-MurIL10_at |
1460.67 |
A |
0.382599 |
| AFFX-MurIL4_at |
488.211 |
A |
0.5 |
| AFFX-MurFAS_at |
788.971 |
A |
0.205732 |
| AFFX-BioB-5_at |
16566.7 |
P |
0.000389797 |
| AFFX-BioB-M_at |
38045.5 |
P |
6.02111e-05 |
| AFFX-BioB-3_at |
20435.7 |
P |
5.16732e-05 |
| AFFX-BioC-5_at |
42475.3 |
P |
0.00010954 |
| AFFX-BioC-3_at |
36281 |
P |
4.42873e-05 |
| AFFX-BioDn-5_at |
58611.3 |
P |
4.42873e-05 |
| AFFX-BioDn-3_at |
252147 |
P |
5.16732e-05 |
| AFFX-CreX-5_at |
552499 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
735079 |
P |
4.42873e-05 |
| AFFX-BioB-5_st |
2146.13 |
A |
0.250796 |
| AFFX-BioB-M_st |
2736.91 |
A |
0.216524 |
| AFFX-BioB-3_st |
1310.07 |
A |
0.51489 |
| AFFX-BioC-5_st |
731.804 |
A |
0.686277 |
| AFFX-BioC-3_st |
635.804 |
A |
0.48511 |
| AFFX-BioDn-5_st |
5696.47 |
A |
0.0676785 |
| AFFX-BioDn-3_st |
9239.64 |
P |
0.0138105 |
Total number of rows: 11934
Table truncated, full table size 346 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM86488.CEL.gz |
2.6 Mb |
(ftp)(http) |
CEL |
| GSM86488.EXP.gz |
519 b |
(ftp)(http) |
EXP |
|
|
|
|
 |
