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| Status |
Public on Dec 09, 2005 |
| Title |
PG13 SP3, chip MG_U74Av2 |
| Sample type |
RNA |
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| Source name |
PG13 cell line, Fibroblast
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| Organism |
Mus musculus |
| Characteristics |
Defining markers: GFP
|
| Treatment protocol |
Assays to confirm viability: 7AAD staining
|
| Growth protocol |
Growth medium: IMDM
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA prep method: RNeasy
Cell purification method: Cell sorting
Method for estimating purity: Reanalysis of sorted population by FACS-Vantage
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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. Mickie Bhatia (mbhatia@robarts.ca; Box 5015; 100 Perth Drive) for analysis.
Stembase Experiment ID: E37
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=37
SCGP Sample ID: S55
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=37#SAMPLE_41
Short description: Total RNA from PG13 transduced with Smad7 recombinant retroviral vector (MIEV-Smad7).
Estimated purity: ~ 98%
RNA concentration: 2.0 ug/ul
Num cells for RNA prep: 4x10e6
Sample volume: 9.0 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
|
| Street address |
501 Smyth Rd.
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| City |
Ottawa |
| State/province |
ON |
| ZIP/Postal code |
K1H 8L6 |
| Country |
Canada |
| |
|
| Platform ID |
GPL81 |
| Series (1) |
| GSE3771 |
Role of Smad7 in Hematopoietic (M-O7e) and Non-Hematopoietic (PG13) Stem 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-MurIL2_at |
171.041 |
A |
0.824672 |
| AFFX-MurIL10_at |
563.44 |
A |
0.440646 |
| AFFX-MurIL4_at |
266.453 |
A |
0.327079 |
| AFFX-MurFAS_at |
543.451 |
A |
0.156732 |
| AFFX-BioB-5_at |
2145.64 |
P |
0.0125468 |
| AFFX-BioB-M_at |
3350.14 |
P |
0.000856509 |
| AFFX-BioB-3_at |
1393.2 |
P |
0.0113844 |
| AFFX-BioC-5_at |
5570.37 |
P |
0.000296708 |
| AFFX-BioC-3_at |
3314.67 |
P |
6.02111e-05 |
| AFFX-BioDn-5_at |
5348.07 |
P |
0.000224668 |
| AFFX-BioDn-3_at |
26643.1 |
P |
0.000195116 |
| AFFX-CreX-5_at |
46490 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
75412.4 |
P |
4.42873e-05 |
| AFFX-BioB-5_st |
241.328 |
A |
0.440646 |
| AFFX-BioB-M_st |
684.816 |
A |
0.455413 |
| AFFX-BioB-3_st |
259.672 |
A |
0.868639 |
| AFFX-BioC-5_st |
123.192 |
A |
0.941556 |
| AFFX-BioC-3_st |
41.2166 |
A |
0.973889 |
| AFFX-BioDn-5_st |
385.805 |
A |
0.470241 |
| AFFX-BioDn-3_st |
1114.02 |
A |
0.165861 |
Total number of rows: 12488
Table truncated, full table size 359 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM86549.CEL.gz |
3.0 Mb |
(ftp)(http) |
CEL |
| GSM86549.EXP.gz |
521 b |
(ftp)(http) |
EXP |
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