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Sample GSM64972 Query DataSets for GSM64972
Status Public on Jul 22, 2005
Title R1 EB 7d 2, chip MOE430A
Sample type RNA
 
Source name R1, Fetal cells
Organism Mus musculus
Characteristics Strain: 129/Sv x 129/Sv-CP
Gender: Male
Biomaterial provider Contact details for sample vendor: R1 sample obtained from Andras Nagy's lab
Growth protocol Growth medium: ES Cell Medium - DMEM (high glucose)
Media supplements: Hyclone FCS (heat inactivated), non-essential amino acids, Glutamax, Penicillin/Streptomycin, sodium pyruvate, beta-mercaptoethanol
Culture conditions: 37 C, 5% CO2
Extracted molecule total RNA
Extraction protocol RNA prep method: RNeasy
Cell purification method: Culturing
Contaminating cell type: none
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. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID: E165
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165
SCGP Sample ID: S215
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_173
Short description: 7 days of an 11-point time course study of R1 embryonic stem cells and their cognate differentiated embryoid bodies. All samples investigated in triplicate. The cells are differentiating embryonic bodies from murine embryonic stem cells.
Estimated purity: 100%
RNA concentration: 2.0 ug/uL
Num cells for RNA prep: Unable to break up embryoid bodies to do a cell count.
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 Jul 21, 2005
Last update date Apr 01, 2011
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 GPL339
Series (1)
GSE2972 R1 Embryonic Stem Cell and Embryoid Body Time Course
Relations
Reanalyzed by GSE26498

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 2993.78 P 0.00110197
AFFX-BioB-M_at 5642.42 P 9.4506e-05
AFFX-BioB-3_at 2836.61 P 0.000856509
AFFX-BioC-5_at 7326 P 9.4506e-05
AFFX-BioC-3_at 5758.59 P 4.42873e-05
AFFX-BioDn-5_at 4880.3 P 4.42873e-05
AFFX-BioDn-3_at 40862.1 P 0.00010954
AFFX-CreX-5_at 78823.2 P 4.42873e-05
AFFX-CreX-3_at 114028 P 4.42873e-05
AFFX-DapX-5_at 34505.6 P 4.42873e-05
AFFX-DapX-M_at 67114.9 P 5.16732e-05
AFFX-DapX-3_at 90286 P 4.42873e-05
AFFX-LysX-5_at 9429.87 P 4.42873e-05
AFFX-LysX-M_at 15904.2 P 4.42873e-05
AFFX-LysX-3_at 29145 P 4.42873e-05
AFFX-PheX-5_at 3501.45 P 7.00668e-05
AFFX-PheX-M_at 4167.07 P 0.00010954
AFFX-PheX-3_at 5821.7 P 4.42873e-05
AFFX-ThrX-5_at 1005.79 P 0.00110197
AFFX-ThrX-M_at 1705.92 P 0.00159257

Total number of rows: 22690

Table truncated, full table size 693 Kbytes.




Supplementary file Size Download File type/resource
GSM64972.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM64972.EXP.gz 507 b (ftp)(http) EXP

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