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Sample GSM64947 Query DataSets for GSM64947
Status Public on Jul 22, 2005
Title R1 EB 24h 1, chip MOE430B
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: S210
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_169
Short description: 24 hours 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 Jan 19, 2006
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 GPL340
Series (1)
GSE2972 R1 Embryonic Stem Cell and Embryoid Body Time Course

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 9538.36 P 0.00159257
AFFX-BioB-M_at 17293.3 P 0.000389797
AFFX-BioB-3_at 8629.26 P 0.000340305
AFFX-BioC-5_at 22719.1 P 0.000126798
AFFX-BioC-3_at 15713.4 P 6.02111e-05
AFFX-BioDn-5_at 13733.9 P 8.14279e-05
AFFX-BioDn-3_at 117531 P 0.000169227
AFFX-CreX-5_at 202993 P 4.42873e-05
AFFX-CreX-3_at 291258 P 4.42873e-05
AFFX-DapX-5_at 77945.9 P 4.42873e-05
AFFX-DapX-M_at 168938 P 5.16732e-05
AFFX-DapX-3_at 231005 P 4.42873e-05
AFFX-LysX-5_at 20814.4 P 4.42873e-05
AFFX-LysX-M_at 36494.5 P 4.42873e-05
AFFX-LysX-3_at 79337.4 P 4.42873e-05
AFFX-PheX-5_at 7921.23 P 0.000195116
AFFX-PheX-M_at 9247.06 P 0.000509415
AFFX-PheX-3_at 15682.6 P 0.000195116
AFFX-ThrX-5_at 2410.01 P 0.002867
AFFX-ThrX-M_at 4166.83 P 0.0200219

Total number of rows: 22575

Table truncated, full table size 665 Kbytes.




Supplementary file Size Download File type/resource
GSM64947.CEL.gz 3.3 Mb (ftp)(http) CEL
GSM64947.EXP.gz 491 b (ftp)(http) EXP

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