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Status |
Public on Dec 09, 2005 |
Title |
R1ES n+2, 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: 5.10 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 |
192.978 |
A |
0.9273 |
AFFX-MurIL10_at |
1087.16 |
A |
0.425962 |
AFFX-MurIL4_at |
141.064 |
A |
0.814869 |
AFFX-MurFAS_at |
663.237 |
A |
0.574038 |
AFFX-BioB-5_at |
22571.1 |
P |
0.000258358 |
AFFX-BioB-M_at |
52420.8 |
P |
4.42873e-05 |
AFFX-BioB-3_at |
31854.3 |
P |
4.42873e-05 |
AFFX-BioC-5_at |
61001 |
P |
6.02111e-05 |
AFFX-BioC-3_at |
56422.8 |
P |
4.42873e-05 |
AFFX-BioDn-5_at |
61524 |
P |
5.16732e-05 |
AFFX-BioDn-3_at |
291755 |
P |
4.42873e-05 |
AFFX-CreX-5_at |
597384 |
P |
4.42873e-05 |
AFFX-CreX-3_at |
787237 |
P |
4.42873e-05 |
AFFX-BioB-5_st |
2620.88 |
A |
0.216524 |
AFFX-BioB-M_st |
3194.28 |
A |
0.0956669 |
AFFX-BioB-3_st |
1314.71 |
A |
0.52976 |
AFFX-BioC-5_st |
1375.74 |
A |
0.368438 |
AFFX-BioC-3_st |
1576 |
A |
0.195266 |
AFFX-BioDn-5_st |
4978.44 |
M |
0.0584438 |
AFFX-BioDn-3_st |
10855.4 |
P |
0.00618711 |
Total number of rows: 12477
Table truncated, full table size 358 Kbytes.
Supplementary file |
Size |
Download |
File type/resource |
GSM86480.CEL.gz |
2.6 Mb |
(ftp)(http) |
CEL |
GSM86480.EXP.gz |
518 b |
(ftp)(http) |
EXP |
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