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| Status |
Public on Sep 01, 2005 |
| Title |
J1-U3, chip MOE430B |
| Sample type |
RNA |
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| Source name |
J1 ES Cells, embryonic
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| Organism |
Mus musculus |
| Characteristics |
Strain: 129/Sv
Gender: Male
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| Growth protocol |
Growth medium: D-MEM
Media supplements: 10% fetal bovine serum, glutamax, sodium pyruvate, non-essential amino-acids, penicillin, streptomycin, beta-mercaptoethanol, leukemia inhibitory factor
Culture conditions: On gelatin (0.1%) at 37C, 5% CO2 for 2 days
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA prep method: RNeasy
Contaminating cell type: DR4 feeders
Method for estimating purity: By eye
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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. Michael Rudnicki ([email protected]; 501 Smyth Road) for analysis.
Stembase Experiment ID: E95
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=95
SCGP Sample ID: S128
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=95#SAMPLE_96
Short description: Total RNA was extracted from J1 ES cells following 2 days of culture.
Estimated purity: 95%
RNA concentration: 2 ug/ul
Num cells for RNA prep: 8-10x10E6
Sample volume: 20 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 |
Aug 30, 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
|
| 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 |
GPL340 |
| Series (1) |
| GSE3223 |
Comparison of Gene Expression Profiles of J1 ES and J1 EB 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 |
5222.7 |
P |
0.0113844 |
| AFFX-BioB-M_at |
11395.6 |
P |
0.000195116 |
| AFFX-BioB-3_at |
6326.47 |
P |
0.000972149 |
| AFFX-BioC-5_at |
15441.7 |
P |
0.00010954 |
| AFFX-BioC-3_at |
9804.69 |
P |
8.14279e-05 |
| AFFX-BioDn-5_at |
11533.3 |
P |
8.14279e-05 |
| AFFX-BioDn-3_at |
81054.2 |
P |
9.4506e-05 |
| AFFX-CreX-5_at |
168029 |
P |
4.42873e-05 |
| AFFX-CreX-3_at |
298576 |
P |
4.42873e-05 |
| AFFX-DapX-5_at |
158122 |
P |
4.42873e-05 |
| AFFX-DapX-M_at |
260756 |
P |
4.42873e-05 |
| AFFX-DapX-3_at |
341248 |
P |
4.42873e-05 |
| AFFX-LysX-5_at |
57705.5 |
P |
4.42873e-05 |
| AFFX-LysX-M_at |
111200 |
P |
4.42873e-05 |
| AFFX-LysX-3_at |
144345 |
P |
4.42873e-05 |
| AFFX-PheX-5_at |
25077.2 |
P |
4.42873e-05 |
| AFFX-PheX-M_at |
32920 |
P |
4.42873e-05 |
| AFFX-PheX-3_at |
41670 |
P |
4.42873e-05 |
| AFFX-ThrX-5_at |
9349.82 |
P |
8.14279e-05 |
| AFFX-ThrX-M_at |
11387.4 |
P |
4.42873e-05 |
Total number of rows: 22575
Table truncated, full table size 667 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM72627.CEL.gz |
3.3 Mb |
(ftp)(http) |
CEL |
| GSM72627.EXP.gz |
506 b |
(ftp)(http) |
EXP |
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