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| Status |
Public on Dec 09, 2005 |
| Title |
R1ES n+1, chip MG_U74Bv2 |
| Sample type |
RNA |
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| Source name |
ES cell line, Blastocyst
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| Organism |
Mus musculus |
| Characteristics |
Strain: 129/SV
Defining markers: Oct4
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| Treatment protocol |
Assays to confirm viability: None, grown in normal stem cell conditions
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| Growth protocol |
Growth medium: 0.1% gelatin
Media supplements: high glucose, +15% HyClone FBS, Lif, NaPyruvate, nonessential aa, L-glutamine, B-mercaptoethanol, !Sample_extract_protocol = RNA prep method: RNeasy
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| Extracted molecule |
total RNA |
| Extraction protocol |
Cell purification method: None
Contaminating cell type: differentiated ES cells may be present
Method for estimating purity: Visual inspection
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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. 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: S13
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=11#SAMPLE_11
Short description: R1ES: Embryonic stem cells (WT)
Estimated purity: 95-99%
RNA concentration: 5.88 ug/ul
Sample volume: 40.0 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) |
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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-MurIL2_at |
221.537 |
A |
0.852061 |
| AFFX-MurIL10_at |
303.139 |
A |
0.58862 |
| AFFX-MurIL4_at |
285.871 |
A |
0.631562 |
| AFFX-MurFAS_at |
730.704 |
A |
0.0676785 |
| AFFX-BioB-5_at |
9498.65 |
P |
0.000972149 |
| AFFX-BioB-M_at |
23547.7 |
P |
9.4506e-05 |
| AFFX-BioB-3_at |
15852.4 |
P |
9.4506e-05 |
| AFFX-BioC-5_at |
29659.8 |
P |
8.14279e-05 |
| AFFX-BioC-3_at |
26017.9 |
P |
5.16732e-05 |
| AFFX-BioDn-5_at |
25737.6 |
P |
7.00668e-05 |
| AFFX-BioDn-3_at |
168208 |
P |
7.00668e-05 |
| AFFX-CreX-5_at |
301019 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
440570 |
P |
4.42873e-05 |
| AFFX-BioB-5_st |
3151.05 |
M |
0.0429619 |
| AFFX-BioB-M_st |
4883.76 |
P |
0.0396608 |
| AFFX-BioB-3_st |
2764.62 |
A |
0.340661 |
| AFFX-BioC-5_st |
2662.3 |
A |
0.368438 |
| AFFX-BioC-3_st |
1020.31 |
A |
0.340661 |
| AFFX-BioDn-5_st |
6531.96 |
P |
0.026111 |
| AFFX-BioDn-3_st |
10802.4 |
P |
0.00401721 |
Total number of rows: 12477
Table truncated, full table size 358 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM86479.CEL.gz |
2.6 Mb |
(ftp)(http) |
CEL |
| GSM86479.EXP.gz |
519 b |
(ftp)(http) |
EXP |
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