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Sample GSM64961 Query DataSets for GSM64961
Status Public on Jul 22, 2005
Title R1 EB 48h 2, 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: S212
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_171
Short description: 48 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 11434.1 P 0.000856509
AFFX-BioB-M_at 20624 P 7.00668e-05
AFFX-BioB-3_at 9986.78 P 9.4506e-05
AFFX-BioC-5_at 29053.6 P 7.00668e-05
AFFX-BioC-3_at 21732.2 P 5.16732e-05
AFFX-BioDn-5_at 19557.8 P 4.42873e-05
AFFX-BioDn-3_at 155792 P 8.14279e-05
AFFX-CreX-5_at 289625 P 4.42873e-05
AFFX-CreX-3_at 410537 P 4.42873e-05
AFFX-DapX-5_at 164771 P 4.42873e-05
AFFX-DapX-M_at 304308 P 4.42873e-05
AFFX-DapX-3_at 425869 P 4.42873e-05
AFFX-LysX-5_at 46585.6 P 4.42873e-05
AFFX-LysX-M_at 80979.1 P 4.42873e-05
AFFX-LysX-3_at 144805 P 4.42873e-05
AFFX-PheX-5_at 16119.3 P 4.42873e-05
AFFX-PheX-M_at 19500.6 P 4.42873e-05
AFFX-PheX-3_at 26402.3 P 4.42873e-05
AFFX-ThrX-5_at 6933.94 P 0.000258358
AFFX-ThrX-M_at 8432.87 P 0.000296708

Total number of rows: 22575

Table truncated, full table size 665 Kbytes.




Supplementary file Size Download File type/resource
GSM64961.CEL.gz 3.3 Mb (ftp)(http) CEL
GSM64961.EXP.gz 493 b (ftp)(http) EXP

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